Öffentliches RegisterGut
Software-GesundheitsberichtSchema 0.26.0 · Metriken 1.13.0 · 2026-07-22 04:32 UTC
YosefLab / scib-metrics
Accelerated, Python-only, single-cell integration benchmarking metrics
YosefLab/scib-metrics erreicht einen Gesundheitsindex von 73 von 100 und liegt damit im Bereich Gut. Am stärksten schneidet es bei Engineering Quality (92/100) ab, am schwächsten bei AI Readiness (47/100). Zuletzt heute aktualisiert. Ein einzelner Mitwirkender trägt den Großteil der jüngsten Arbeit.
73
gesamt / 100Software-Gesundheitsindex
Metriken werden auf einer Skala von 1–100 in gewichtete Kategorien gruppiert. Der Gesamtwert beginnt als ihr Mittel; sobald öffentliche Evidenz die Richtlinie für Hochrisikojurisdiktionen auslöst, wird die Bewertung angepasst und erhält die Obergrenze 49 (Gefährdet). AI Readiness liegt außerhalb.
73
Exzellent85-100Vorbildlich; erfüllt im Wesentlichen alle geprüften Kriterien
Gut70-84Gesund; geringfügige Lücken
Mittel50-69Akzeptabel mit deutlichen Lücken; Überprüfung empfohlen
Gefährdet30-49Erhebliche Schwächen; eine Übernahme erfordert Vorsicht
Kritisch1-29Schwerwiegende Probleme (aufgegeben, nur ein Maintainer, keine Hygiene)
Bewertungsprofil
Jede Achse ist eine Kategorie. Die Form zählt mehr als der Durchschnitt — ein gesundes Projekt füllt die gesamte Fläche, während ein Profil aus Spitzen und Kratern bedeutet, dass Stärke in einer Dimension Risiken in einer anderen verdeckt.
Eigentümerschaft
Yosef LabOrganisation
138 Follower73 öffentliche Reposseit Aug. 2015
Dieses Repository wird von einer Organisation getragen — geteilte, rechenschaftspflichtige Trägerschaft, die jeden einzelnen Maintainer überdauern kann.
Paket-Ökosysteme
| Registry | Paket | Version | Downloads / Monat | Versionen | Zuletzt veröffentlicht |
|---|---|---|---|---|---|
| PyPI | scib-metrics | 0.5.10 | - | 28 | vor 8 Tagen |
Metriken nach Kategorie
Vitalität
Lebt das Projekt — wird Code geschrieben und werden Releases ausgeliefert?
90
Entwicklungsaktivität
88Exzellent
Wie die Bewertung erfolgt
| 36/36 | Push-Aktualität — letzter Push vor 0 Tagen |
| 26.3/36 | Commit-Rhythmus — 38/52 Wochen mit Commits |
| 15.6/18 | Commit-Volumen — 54 Commits im letzten Jahr |
| 10/10 | OpenSSF Scorecard: Maintained — 15 commit(s) and 0 issue activity found in the last 90 days -- score normalized to 10 |
Verwendete Eingangsdaten
| commits_last_year | 54 |
| human_commit_share | 0,31 |
| days_since_last_push | 0 |
| active_weeks_last_year | 38 |
Release-Disziplin
92Exzellent
Wie die Bewertung erfolgt
| 27/27 | Liefert Releases aus — 29 Releases veröffentlicht |
| 36/36 | Release-Aktualität — letztes Release vor 8 Tagen |
| 19.8/27 | Release-Rhythmus — ein Release etwa alle 96,7 Tage |
| 0/10 | OpenSSF Scorecard: Signed-Releases — keine Daten |
Verwendete Eingangsdaten
| releases_count | 29 |
| latest_release_tag | v0.5.10 |
| releases_from_tags | nein |
| days_since_latest_release | 8 |
| mean_days_between_releases | 96,7 |
Von der Bewertung ausgeschlossen (keine Daten oder nicht anwendbar): OpenSSF Scorecard: Signed-Releases. Die verbleibenden Gewichte wurden renormalisiert.
Community & Verbreitung
Hat das Projekt Nutzer, Downloads, Aufmerksamkeit und ein einladendes Umfeld für Beitragende?
58
Popularität & Verbreitung
47Gefährdet
Wie die Bewertung erfolgt
| 32.1/60 | Stars — 96 Stars |
| 11/25 | Forks — 22 Forks |
| 3.9/15 | Watcher — 6 Watcher |
Verwendete Eingangsdaten
| forks | 22 |
| stars | 96 |
| watchers | 6 |
| growth_state | unverified |
| growth_factor_pct | 100 |
| growth_unverified_reason | below_threshold |
Community-Gesundheit
70Gut
Wie die Bewertung erfolgt
| 22.5/22.5 | README |
| 22.5/22.5 | Lizenz — anerkannte Lizenz (BSD-3-Clause) |
| 18/18 | CONTRIBUTING-Leitfaden |
| 0/13.5 | Verhaltenskodex |
| 0/7.2 | Issue-Vorlage |
| 0/6.3 | PR-Vorlage |
Verwendete Eingangsdaten
| has_readme | ja |
| has_license | ja |
| has_contributing | ja |
| has_issue_template | nein |
| has_code_of_conduct | nein |
| has_pull_request_template | nein |
Nachhaltigkeit & Governance
Überdauert das Projekt die Menschen, die es tragen — Bus-Faktor, Reaktionsfähigkeit, Trägerschaft und Paketpflege?
68
Maintainer-Resilienz (Bus-Faktor)
38Gefährdet
Wie die Bewertung erfolgt
| 9/54 | Bus-Faktor — 1 Beitragende decken die Hälfte aller Commits ab |
| 7.2/22.5 | Commit-Verteilung — wichtigste beitragende Person verfasste 68 % der Commits |
| 12.2/13.5 | Breite der Beitragenden — 9 Beitragende |
| 10/10 | OpenSSF Scorecard: Contributors — project has 5 contributing companies or organizations |
Verwendete Eingangsdaten
| bus_factor | 1 |
| contributors_sampled | 9 |
| top_contributor_share | 0,679 |
Wie die Bewertung erfolgt
| 40.8/46.8 | Issue-Lösungsquote — 87 % der Issues geschlossen |
| 35.5/38.3 | PR-Annahme — 203/219 entschiedene PRs gemergt |
| 0/15 | OpenSSF Scorecard: Code-Review — Found 0/9 approved changesets -- score normalized to 0 |
Verwendete Eingangsdaten
| merged_prs | 203 |
| open_issues | 7 |
| closed_issues | 48 |
| issue_closed_ratio | 0,873 |
| closed_unmerged_prs | 16 |
Wie die Bewertung erfolgt
| 30/30 | Organisatorische Trägerschaft — im Besitz einer Organisation |
| 0/20 | Verifizierte Domain |
| 15.4/25 | Reichweite des Inhabers — 138 Follower von YosefLab |
| 25/25 | Kontohistorie — 73 öffentliche Repos, Kontoalter ca. 10 Jahre |
Verwendete Eingangsdaten
| followers | 138 |
| owner_type | Organization |
| is_verified | — |
| owner_login | YosefLab |
| public_repos | 73 |
| account_age_days | 3.991 |
Paketpflege
100Exzellent
Wie die Bewertung erfolgt
| 25/25 | Veröffentlicht & auflösbar — 1 Paket(e) auf pypi |
| 35/35 | Veröffentlichungsaktualität — letzte Veröffentlichung vor 8 Tagen |
| 20/20 | Versionshistorie — 28 veröffentlichte Versionen |
| 20/20 | Nicht veraltet — aktiv, nicht veraltet oder zurückgezogen |
Verwendete Eingangsdaten
| packages | scib-metrics |
| ecosystems | pypi |
| any_deprecated | nein |
| min_days_since_publish | 8 |
Engineering-Qualität
Sind grundlegende Engineering- und Dokumentationspraktiken vorhanden?
92
Engineering-Praktiken
100Exzellent
Wie die Bewertung erfolgt
| 24/24 | CI-Workflows — 8 Workflow(s) |
| 24/24 | Tests vorhanden |
| 16/16 | Linter-Konfiguration |
| 9.6/9.6 | Pre-Commit-Hooks |
| 6.4/6.4 | .editorconfig |
| 20/20 | OpenSSF Scorecard: CI-Tests — 24 out of 24 merged PRs checked by a CI test -- score normalized to 10 |
Verwendete Eingangsdaten
| has_ci | ja |
| has_tests | ja |
| has_editorconfig | ja |
| has_linter_config | ja |
| has_precommit_config | ja |
Dokumentation
80Gut
Wie die Bewertung erfolgt
| 30/30 | README |
| 25/25 | Dokumentationsverzeichnis |
| 15/15 | Dokumentations-/Homepage-Site — https://scib-metrics.readthedocs.io/ |
| 10/10 | Repository-Beschreibung |
| 0/10 | Topics |
| 0/10 | Wiki |
Verwendete Eingangsdaten
| topics | — |
| has_wiki | nein |
| homepage | https://scib-metrics.readthedocs.io/ |
| has_readme | ja |
| has_docs_dir | ja |
| has_description | ja |
Sicherheit
Sind die sichtbaren Sicherheits- und Lieferkettenpraktiken belastbar, ohne ungeklärte Exposition gegenüber Hochrisikojurisdiktionen?
50
Sicherheitslage
50Mittel
Wie die Bewertung erfolgt
| 7.5/7.5 | Binary-Artifacts — no binaries found in the repo |
| 3.8/7.5 | Branch-Protection — branch protection is not maximal on development and all release branches |
| 2.5/2.5 | CI-Tests — 24 out of 24 merged PRs checked by a CI test -- score normalized to 10 |
| 0/2.5 | CII-Best-Practices — no effort to earn an OpenSSF best practices badge detected |
| 0/7.5 | Code-Review — Found 0/9 approved changesets -- score normalized to 0 |
| 2.5/2.5 | Contributors — project has 5 contributing companies or organizations |
| 10/10 | Dangerous-Workflow — no dangerous workflow patterns detected |
| 0/7.5 | Dependency-Update-Tool — no update tool detected |
| 0/5 | Fuzzing — project is not fuzzed |
| 2.5/2.5 | Lizenz — license file detected |
| 7.5/7.5 | Maintained — 15 commit(s) and 0 issue activity found in the last 90 days -- score normalized to 10 |
| 5/5 | Packaging — packaging workflow detected |
| 0/5 | Pinned-Dependencies — dependency not pinned by hash detected -- score normalized to 0 |
| 0/5 | SAST — SAST tool is not run on all commits -- score normalized to 0 |
| 0/5 | Security-Policy — security policy file not detected |
| 0/7.5 | Signed-Releases — keine Daten |
| 0/7.5 | Token-Permissions — detected GitHub workflow tokens with excessive permissions |
| 7.5/7.5 | Vulnerabilities — 0 existing vulnerabilities detected |
Verwendete Eingangsdaten
| source | openssf_scorecard |
| checks_evaluated | 17 |
| scorecard_version | v5.5.0 |
| checks_inconclusive | 1 |
| scorecard_aggregate | 5 |
Von der Bewertung ausgeschlossen (keine Daten oder nicht anwendbar): signed_releases. Die verbleibenden Gewichte wurden renormalisiert.
AI Readiness
Wie gut ist das Repository dafür ausgestattet, mit KI-Coding-Agenten entwickelt und gepflegt zu werden? Ein unabhängiges, experimentelles Badge — Gewicht 0,0, es wird eigenständig ausgewiesen und verändert den Gesamt-Gesundheitswert nicht.
47
AI-Agentenkontext & Leitlinien
40Gefährdet
Wie die Bewertung erfolgt
| 0/45 | Agentenanweisungen — keine CLAUDE.md / AGENTS.md / Editor-Regeln |
| 0/15 | Maschinenlesbare Doku (llms.txt) |
| 39.6/40 | Lesbare Commit-Historie — 23 von 31 menschlichen Commits benennen ihre Absicht (strukturierter Betreff oder erläuternder Text) |
Verwendete Eingangsdaten
| has_llms_txt | nein |
| legible_history_share | 0,742 |
| agent_instruction_files | — |
| agent_instruction_max_bytes | — |
Wie die Bewertung erfolgt
| 18/18 | Bootstrap mit einem Befehl — docs/Makefile |
| 22/22 | Automatisierte Tests |
| 11/11 | Lint-/Format-Konfiguration |
| 0/11 | Statische Typprüfung |
| 0/10 | Reproduzierbare Umgebung |
| 0/10 | Belegte Agentenpraxis — keine von Agenten verfassten Commits unter den letzten 100 |
| 0/8 | Automatisierte Wartung — keine automatisierten Abhängigkeits-Updates beobachtet |
| 0/10 | OpenSSF Scorecard: Pinned-Dependencies — dependency not pinned by hash detected -- score normalized to 0 |
Verwendete Eingangsdaten
| has_nix | nein |
| has_tests | ja |
| lockfiles | — |
| has_dockerfile | nein |
| typed_language | nein |
| bootstrap_files | docs/Makefile |
| has_devcontainer | nein |
| has_linter_config | ja |
| typecheck_configs | — |
| agent_commit_share | 0 |
| toolchain_manifests | — |
| dependency_bot_commit_share | 0 |
AI-Code-Lesbarkeit für Modelle
55Mittel
Wie die Bewertung erfolgt
| 0/45 | Typprüfbarer Code — Python ohne Typprüfungs-Konfiguration |
| 55/55 | Handhabbare Dateigrößen — 0/40 Quelldateien über 60 KB |
Verwendete Eingangsdaten
| primary_language | Python |
| largest_source_bytes | 16.779 |
| source_files_sampled | 40 |
| oversized_source_files | 0 |
Maschinenlesbare AI-Schnittstellen
40Gefährdet
Wie die Bewertung erfolgt
| 0/40 | API-Schema (OpenAPI/GraphQL/proto) |
| 0/20 | MCP-Server |
| 40/40 | Lauffähige Beispiele — notebooks |
Verwendete Eingangsdaten
| example_dirs | notebooks |
| has_mcp_signal | nein |
| api_schema_files | — |
Eckdaten
96GitHub-Sterne
9Mitwirkende
54Commits, letzte 12 Monate
0Tage seit letztem Push
29Releases
1Bus-Faktor
7offene Issues
PyPIPaket-Ökosysteme
Warnungen zur Datenerhebung
- deps.dev does not index pypi:scib-metrics@0.5.10; advisories assessed against the repository dependency graph instead
- No resolved dependencies carried a version and a supported ecosystem
Weitere Details
Stern- und Fork-Verlauf 96 ★ / 22 ⇿
96Sterne
22Forks
25Releases
Wann jeder Stern und Fork hinzugefügt wurde, von GitHub erfasst und nach Tagen gruppiert. Das kumulierte Wachstum steht direkt über den täglichen Zugängen, aus denen es besteht, sodass beide gegeneinander lesbar sind: stetiger organischer Zuwachs sieht ganz anders aus als ein abrupter, kurzlebiger Ausschlag. Wo dieser Unterschied messbar ist, wird er als Wachstumsauthentizität ausgewiesen.
Major 0Minor 5Patch 20
Jeder Punkt umfasst 4 Tage.
OpenSSF Scorecard 5.0 / 10
5.0Gesamtwert
Unabhängige, werkzeugneutrale Sicherheitsbewertung durch das quelloffene OpenSSF Scorecard. Jede Prüfung honoriert eine Sicherheits-Praxis, nicht das Werkzeug eines bestimmten Anbieters. Prüfungen, die Scorecard nicht ermitteln konnte, sind mit k. A. markiert und vom Sicherheitswert ausgeschlossen (nie als null gezählt).
| 10 | Binary-Artifacts | no binaries found in the repo |
| 5 | Branch-Protection | branch protection is not maximal on development and all release branches |
| 10 | CI-Tests | 24 out of 24 merged PRs checked by a CI test -- score normalized to 10 |
| 0 | CII-Best-Practices | no effort to earn an OpenSSF best practices badge detected |
| 0 | Code-Review | Found 0/9 approved changesets -- score normalized to 0 |
| 10 | Contributors | project has 5 contributing companies or organizations |
| 10 | Dangerous-Workflow | no dangerous workflow patterns detected |
| 0 | Dependency-Update-Tool | no update tool detected |
| 0 | Fuzzing | project is not fuzzed |
| 10 | License | license file detected |
| 10 | Maintained | 15 commit(s) and 0 issue activity found in the last 90 days -- score normalized to 10 |
| 10 | Packaging | packaging workflow detected |
| 0 | Pinned-Dependencies | dependency not pinned by hash detected -- score normalized to 0 |
| 0 | SAST | SAST tool is not run on all commits -- score normalized to 0 |
| 0 | Security-Policy | security policy file not detected |
| k. A. | Signed-Releases | no releases found |
| 0 | Token-Permissions | detected GitHub workflow tokens with excessive permissions |
| 10 | Vulnerabilities | 0 existing vulnerabilities detected |
Direkte Abhängigkeiten 16
| Registry | Paket | Versionsvorgabe | Manifest |
|---|---|---|---|
| PyPI | anndata | — | pyproject.toml |
| PyPI | chex | — | pyproject.toml |
| PyPI | jax | — | pyproject.toml |
| PyPI | jaxlib | — | pyproject.toml |
| PyPI | numpy | — | pyproject.toml |
| PyPI | pandas | — | pyproject.toml |
| PyPI | scipy | — | pyproject.toml |
| PyPI | scikit-learn | — | pyproject.toml |
| PyPI | scanpy | >=1.9 | pyproject.toml |
| PyPI | rich | — | pyproject.toml |
| PyPI | pynndescent | — | pyproject.toml |
| PyPI | igraph | >0.9.0 | pyproject.toml |
| PyPI | matplotlib | — | pyproject.toml |
| PyPI | plottable | — | pyproject.toml |
| PyPI | tqdm | — | pyproject.toml |
| PyPI | umap-learn | >=0.5.0 | pyproject.toml |
Alle Abhängigkeiten 11
Vollständig aufgelöster Abhängigkeitssatz aus dem GitHub-Abhängigkeitsgraphen: 3 direkte und 8 indirekte (transitive) Pakete. Die transitive Hülle ist vollständig, wenn das Repository eine Lockfile eincheckt.
| Registry | Paket | Version | Beziehung |
|---|---|---|---|
| PyPI | igraph | — | direkt |
| PyPI | scanpy | — | direkt |
| PyPI | umap-learn | — | direkt |
| PyPI | numba | — | indirekt |
| PyPI | pybtex-docutils | — | indirekt |
| PyPI | scanpydoc | — | indirekt |
| PyPI | scib | — | indirekt |
| PyPI | sphinx | — | indirekt |
| PyPI | sphinx-book-theme | — | indirekt |
| PyPI | sphinxcontrib-bibtex | — | indirekt |
| PyPI | twine | — | indirekt |
Abhängigkeits-Advisories nicht bewertet
Der Advisory-Abgleich konnte für diesen Bericht nicht ausgeführt werden: No resolved dependencies carried a version and a supported ecosystem
JSON-Rohbericht maschinenlesbar
{
"data": {
"repo": {
"topics": [],
"is_fork": false,
"size_kb": 1437,
"has_wiki": false,
"homepage": "https://scib-metrics.readthedocs.io/",
"languages": {
"Python": 121140
},
"pushed_at": "2026-07-21T06:42:34Z",
"created_at": "2022-10-03T01:53:06Z",
"owner_type": "Organization",
"updated_at": "2026-07-21T07:25:38Z",
"description": "Accelerated, Python-only, single-cell integration benchmarking metrics",
"is_archived": false,
"is_disabled": false,
"license_spdx": "BSD-3-Clause",
"default_branch": "main",
"license_spdx_raw": "BSD-3-Clause",
"primary_language": "Python",
"significant_languages": [
"Python"
]
},
"owner": {
"blog": "https://www.weizmann.ac.il/immunology/yosef/",
"name": "Yosef Lab",
"type": "Organization",
"login": "YosefLab",
"company": null,
"location": "Israel",
"followers": 138,
"avatar_url": "https://avatars.githubusercontent.com/u/13837262?v=4",
"created_at": "2015-08-17T17:07:24Z",
"is_verified": null,
"public_repos": 73,
"account_age_days": 3991
},
"license": {
"state": "standard",
"spdx_id": "BSD-3-Clause",
"raw_spdx": "BSD-3-Clause",
"file_present": true,
"scorecard_found": true,
"profile_has_license": true
},
"activity": {
"releases": [
{
"tag": "v0.5.10",
"kind": "patch",
"published_at": "2026-07-13T07:05:47Z"
},
{
"tag": "v0.5.9",
"kind": "patch",
"published_at": "2026-02-26T08:11:41Z"
},
{
"tag": "v0.5.8",
"kind": "patch",
"published_at": "2026-02-06T09:57:47Z"
},
{
"tag": "v0.5.7",
"kind": "patch",
"published_at": "2025-09-14T07:22:28Z"
},
{
"tag": "v0.5.6",
"kind": "patch",
"published_at": "2025-07-08T12:30:38Z"
},
{
"tag": "v0.5.5",
"kind": "patch",
"published_at": "2025-06-03T11:04:57Z"
},
{
"tag": "v0.5.4",
"kind": "patch",
"published_at": "2025-04-23T06:16:28Z"
},
{
"tag": "v0.5.3",
"kind": "patch",
"published_at": "2025-02-17T10:04:09Z"
},
{
"tag": "v0.5.2",
"kind": "patch",
"published_at": "2025-02-12T22:19:04Z"
},
{
"tag": "v0.5.1",
"kind": "patch",
"published_at": "2024-02-23T22:18:26Z"
},
{
"tag": "v0.5.0",
"kind": "minor",
"published_at": "2024-01-04T18:38:46Z"
},
{
"tag": "0.4.1",
"kind": "patch",
"published_at": "2023-10-08T20:40:57Z"
},
{
"tag": "0.4.0",
"kind": "minor",
"published_at": "2023-09-18T22:46:24Z"
},
{
"tag": "0.3.3",
"kind": "patch",
"published_at": "2023-03-29T19:04:51Z"
},
{
"tag": "0.3.2",
"kind": "patch",
"published_at": "2023-03-13T17:27:13Z"
},
{
"tag": "0.3.1",
"kind": "patch",
"published_at": "2023-02-16T18:06:54Z"
},
{
"tag": "0.3.0",
"kind": "minor",
"published_at": "2023-02-16T17:08:49Z"
},
{
"tag": "0.2.0",
"kind": "minor",
"published_at": "2023-02-03T17:52:06Z"
},
{
"tag": "0.1.1",
"kind": "patch",
"published_at": "2023-01-04T18:51:35Z"
},
{
"tag": "0.1.0",
"kind": "minor",
"published_at": "2023-01-02T20:28:23Z"
},
{
"tag": "0.0.9",
"kind": "patch",
"published_at": "2022-12-17T03:45:40Z"
},
{
"tag": "0.0.8",
"kind": "patch",
"published_at": "2022-11-18T19:58:25Z"
},
{
"tag": "0.0.7",
"kind": "patch",
"published_at": "2022-10-31T20:27:52Z"
},
{
"tag": "0.0.6",
"kind": "patch",
"published_at": "2022-10-25T16:57:15Z"
},
{
"tag": "0.0.5",
"kind": "patch",
"published_at": "2022-10-25T05:44:14Z"
},
{
"tag": "0.0.4",
"kind": "patch",
"published_at": "2022-10-11T03:38:21Z"
},
{
"tag": "0.0.3",
"kind": "patch",
"published_at": "2022-10-10T03:05:41Z"
},
{
"tag": "0.0.2",
"kind": "patch",
"published_at": "2022-10-03T18:59:51Z"
},
{
"tag": "0.0.1",
"kind": "patch",
"published_at": "2022-10-03T18:52:05Z"
}
],
"recent_commits": [
{
"oid": "ad2afce6acfc09318f92c516e011e86b851413c3",
"body": "updates:\n- [github.com/astral-sh/ruff-pre-commit: v0.15.21 → v0.15.22](https://github.com/astral-sh/ruff-pre-commit/compare/v0.15.21...v0.15.22)\n\nCo-authored-by: pre-commit-ci[bot] <66853113+pre-commit-ci[bot]@users.noreply.github.com>",
"is_bot": true,
"headline": "[pre-commit.ci] pre-commit autoupdate (#279)",
"author_name": "pre-commit-ci[bot]",
"author_login": "pre-commit-ci[bot]",
"committed_at": "2026-07-21T06:42:32Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "d435d7aebefd6cfbb751973c70390fa4b564f396",
"body": "updates:\n- [github.com/astral-sh/ruff-pre-commit: v0.15.20 → v0.15.21](https://github.com/astral-sh/ruff-pre-commit/compare/v0.15.20...v0.15.21)\n\nCo-authored-by: pre-commit-ci[bot] <66853113+pre-commit-ci[bot]@users.noreply.github.com>",
"is_bot": true,
"headline": "[pre-commit.ci] pre-commit autoupdate (#277)",
"author_name": "pre-commit-ci[bot]",
"author_login": "pre-commit-ci[bot]",
"committed_at": "2026-07-14T05:53:28Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "cdeaaa5fb041e17ea396712d3e854bce485b499b",
"body": null,
"is_bot": false,
"headline": "Also updated to codecov/codecov-action@v6",
"author_name": "ori-kron-wis",
"author_login": "ori-kron-wis",
"committed_at": "2026-07-13T07:19:33Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "8a6a855f2bfdaead2408a7b041686882b4ab6c99",
"body": "* ci: update github workflows\n\n* also fixed anndata 0.13 and pandas 3 updated api",
"is_bot": false,
"headline": "ci: update github workflows (#276)",
"author_name": "Ori Kronfeld",
"author_login": "ori-kron-wis",
"committed_at": "2026-07-13T07:01:18Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "132db5b6f11a7e71b64a20afb7b5dff72c371849",
"body": "updates:\n- [github.com/astral-sh/ruff-pre-commit: v0.15.18 → v0.15.20](https://github.com/astral-sh/ruff-pre-commit/compare/v0.15.18...v0.15.20)\n\nCo-authored-by: pre-commit-ci[bot] <66853113+pre-commit-ci[bot]@users.noreply.github.com>",
"is_bot": true,
"headline": "[pre-commit.ci] pre-commit autoupdate (#275)",
"author_name": "pre-commit-ci[bot]",
"author_login": "pre-commit-ci[bot]",
"committed_at": "2026-06-30T07:07:23Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "0be2f216852c3d26468409c1557f398d2fbfdee6",
"body": "updates:\n- [github.com/astral-sh/ruff-pre-commit: v0.15.17 → v0.15.18](https://github.com/astral-sh/ruff-pre-commit/compare/v0.15.17...v0.15.18)\n\nCo-authored-by: pre-commit-ci[bot] <66853113+pre-commit-ci[bot]@users.noreply.github.com>\nCo-authored-by: Ori Kronfeld <ori.kronfeld@weizmann.ac.il>",
"is_bot": true,
"headline": "[pre-commit.ci] pre-commit autoupdate (#274)",
"author_name": "pre-commit-ci[bot]",
"author_login": "pre-commit-ci[bot]",
"committed_at": "2026-06-23T08:25:35Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "d62345481a20066846c97921eb978812eacf8700",
"body": null,
"is_bot": false,
"headline": "Update Read the Docs configuration for new versions",
"author_name": "Ori Kronfeld",
"author_login": "ori-kron-wis",
"committed_at": "2026-06-23T07:47:28Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "851c8e606dad7fa43d2da2b085d997cc96bd49be",
"body": "updates:\n- [github.com/astral-sh/ruff-pre-commit: v0.15.16 → v0.15.17](https://github.com/astral-sh/ruff-pre-commit/compare/v0.15.16...v0.15.17)\n\nCo-authored-by: pre-commit-ci[bot] <66853113+pre-commit-ci[bot]@users.noreply.github.com>",
"is_bot": true,
"headline": "[pre-commit.ci] pre-commit autoupdate (#272)",
"author_name": "pre-commit-ci[bot]",
"author_login": "pre-commit-ci[bot]",
"committed_at": "2026-06-16T05:52:07Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "2d3ce834887d0f5fa4acf65d3e7457d68625879c",
"body": "updates:\n- [github.com/astral-sh/ruff-pre-commit: v0.15.15 → v0.15.16](https://github.com/astral-sh/ruff-pre-commit/compare/v0.15.15...v0.15.16)\n\nCo-authored-by: pre-commit-ci[bot] <66853113+pre-commit-ci[bot]@users.noreply.github.com>",
"is_bot": true,
"headline": "[pre-commit.ci] pre-commit autoupdate (#271)",
"author_name": "pre-commit-ci[bot]",
"author_login": "pre-commit-ci[bot]",
"committed_at": "2026-06-09T06:17:19Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "d9fb5f849d1a292e8e685a2ce1a9cf3415056f78",
"body": "updates:\n- [github.com/astral-sh/ruff-pre-commit: v0.15.14 → v0.15.15](https://github.com/astral-sh/ruff-pre-commit/compare/v0.15.14...v0.15.15)\n\nCo-authored-by: pre-commit-ci[bot] <66853113+pre-commit-ci[bot]@users.noreply.github.com>",
"is_bot": true,
"headline": "[pre-commit.ci] pre-commit autoupdate (#270)",
"author_name": "pre-commit-ci[bot]",
"author_login": "pre-commit-ci[bot]",
"committed_at": "2026-06-02T06:12:13Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "80a0723085913cc5ac2c63df29ea53bee69df992",
"body": "updates:\n- [github.com/astral-sh/ruff-pre-commit: v0.15.13 → v0.15.14](https://github.com/astral-sh/ruff-pre-commit/compare/v0.15.13...v0.15.14)\n\nCo-authored-by: pre-commit-ci[bot] <66853113+pre-commit-ci[bot]@users.noreply.github.com>",
"is_bot": true,
"headline": "[pre-commit.ci] pre-commit autoupdate (#269)",
"author_name": "pre-commit-ci[bot]",
"author_login": "pre-commit-ci[bot]",
"committed_at": "2026-05-25T20:58:34Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "494f1109b948d5a750a958342d72a44ed38f62b9",
"body": "updates:\n- [github.com/astral-sh/ruff-pre-commit: v0.15.12 → v0.15.13](https://github.com/astral-sh/ruff-pre-commit/compare/v0.15.12...v0.15.13)\n\nCo-authored-by: pre-commit-ci[bot] <66853113+pre-commit-ci[bot]@users.noreply.github.com>",
"is_bot": true,
"headline": "[pre-commit.ci] pre-commit autoupdate (#268)",
"author_name": "pre-commit-ci[bot]",
"author_login": "pre-commit-ci[bot]",
"committed_at": "2026-05-19T06:27:20Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "e15177d634797751a2328af2df06469d71d226b4",
"body": null,
"is_bot": false,
"headline": "Bump version from 0.5.9 to 0.5.10",
"author_name": "Ori Kronfeld",
"author_login": "ori-kron-wis",
"committed_at": "2026-05-12T13:23:58Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "778f4c1f5ff7915b05f7548c9d911b50df0c6a5f",
"body": "* [pre-commit.ci] pre-commit autoupdate\n\nupdates:\n- [github.com/astral-sh/ruff-pre-commit: v0.15.11 → v0.15.12](https://github.com/astral-sh/ruff-pre-commit/compare/v0.15.11...v0.15.12)\n\n* Added support for HarmonyPy V2\n\n---------\n\nCo-authored-by: pre-commit-ci[bot] <66853113+pre-commit-ci[bot]@users.noreply.github.com>\nCo-authored-by: ori-kron-wis <ori.kronfeld@weizmann.ac.il>",
"is_bot": true,
"headline": "[pre-commit.ci] pre-commit autoupdate (#266)",
"author_name": "pre-commit-ci[bot]",
"author_login": "pre-commit-ci[bot]",
"committed_at": "2026-04-28T10:41:47Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "6473ae23bc30c79e9c25380a0230508caa903cde",
"body": "updates:\n- [github.com/astral-sh/ruff-pre-commit: v0.15.10 → v0.15.11](https://github.com/astral-sh/ruff-pre-commit/compare/v0.15.10...v0.15.11)\n\nCo-authored-by: pre-commit-ci[bot] <66853113+pre-commit-ci[bot]@users.noreply.github.com>",
"is_bot": true,
"headline": "[pre-commit.ci] pre-commit autoupdate (#265)",
"author_name": "pre-commit-ci[bot]",
"author_login": "pre-commit-ci[bot]",
"committed_at": "2026-04-23T07:15:38Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "1fe209c1edea3699a6c4509355f866f7046a950e",
"body": "updates:\n- [github.com/astral-sh/ruff-pre-commit: v0.15.9 → v0.15.10](https://github.com/astral-sh/ruff-pre-commit/compare/v0.15.9...v0.15.10)\n\nCo-authored-by: pre-commit-ci[bot] <66853113+pre-commit-ci[bot]@users.noreply.github.com>",
"is_bot": true,
"headline": "[pre-commit.ci] pre-commit autoupdate (#264)",
"author_name": "pre-commit-ci[bot]",
"author_login": "pre-commit-ci[bot]",
"committed_at": "2026-04-14T08:06:25Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "f68d5b94c3e93e646fe6a0a7df1619ad1d345bf4",
"body": "updates:\n- [github.com/astral-sh/ruff-pre-commit: v0.15.8 → v0.15.9](https://github.com/astral-sh/ruff-pre-commit/compare/v0.15.8...v0.15.9)\n\nCo-authored-by: pre-commit-ci[bot] <66853113+pre-commit-ci[bot]@users.noreply.github.com>",
"is_bot": true,
"headline": "[pre-commit.ci] pre-commit autoupdate (#263)",
"author_name": "pre-commit-ci[bot]",
"author_login": "pre-commit-ci[bot]",
"committed_at": "2026-04-09T09:58:25Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "0006efa6ea7ab7409b0bc85757c1d55e883be669",
"body": "updates:\n- [github.com/astral-sh/ruff-pre-commit: v0.15.7 → v0.15.8](https://github.com/astral-sh/ruff-pre-commit/compare/v0.15.7...v0.15.8)\n\nCo-authored-by: pre-commit-ci[bot] <66853113+pre-commit-ci[bot]@users.noreply.github.com>",
"is_bot": true,
"headline": "[pre-commit.ci] pre-commit autoupdate (#262)",
"author_name": "pre-commit-ci[bot]",
"author_login": "pre-commit-ci[bot]",
"committed_at": "2026-03-31T06:34:22Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "00661bb8cecfa4c4e9317721d1989ff015d34e1c",
"body": "updates:\n- [github.com/astral-sh/ruff-pre-commit: v0.15.6 → v0.15.7](https://github.com/astral-sh/ruff-pre-commit/compare/v0.15.6...v0.15.7)\n\nCo-authored-by: pre-commit-ci[bot] <66853113+pre-commit-ci[bot]@users.noreply.github.com>",
"is_bot": true,
"headline": "[pre-commit.ci] pre-commit autoupdate (#261)",
"author_name": "pre-commit-ci[bot]",
"author_login": "pre-commit-ci[bot]",
"committed_at": "2026-03-24T08:10:10Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "7bdb15a775053b080c109dc41956ed8492b13532",
"body": "updates:\n- [github.com/astral-sh/ruff-pre-commit: v0.15.5 → v0.15.6](https://github.com/astral-sh/ruff-pre-commit/compare/v0.15.5...v0.15.6)\n\nCo-authored-by: pre-commit-ci[bot] <66853113+pre-commit-ci[bot]@users.noreply.github.com>",
"is_bot": true,
"headline": "[pre-commit.ci] pre-commit autoupdate (#260)",
"author_name": "pre-commit-ci[bot]",
"author_login": "pre-commit-ci[bot]",
"committed_at": "2026-03-17T07:36:51Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "2c0ca5dd00c48e86ddd0904c543ac53875bf4a35",
"body": "updates:\n- [github.com/astral-sh/ruff-pre-commit: v0.15.4 → v0.15.5](https://github.com/astral-sh/ruff-pre-commit/compare/v0.15.4...v0.15.5)\n\nCo-authored-by: pre-commit-ci[bot] <66853113+pre-commit-ci[bot]@users.noreply.github.com>",
"is_bot": true,
"headline": "[pre-commit.ci] pre-commit autoupdate (#258)",
"author_name": "pre-commit-ci[bot]",
"author_login": "pre-commit-ci[bot]",
"committed_at": "2026-03-09T21:25:18Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "b381c920ef66d9ecd8410617d28c1432088e25d4",
"body": "updates:\n- [github.com/astral-sh/ruff-pre-commit: v0.15.2 → v0.15.4](https://github.com/astral-sh/ruff-pre-commit/compare/v0.15.2...v0.15.4)\n\nCo-authored-by: pre-commit-ci[bot] <66853113+pre-commit-ci[bot]@users.noreply.github.com>",
"is_bot": true,
"headline": "[pre-commit.ci] pre-commit autoupdate (#257)",
"author_name": "pre-commit-ci[bot]",
"author_login": "pre-commit-ci[bot]",
"committed_at": "2026-03-03T06:46:43Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "e22886e3053643a787903bdfc126a34ccd21cf03",
"body": "* Update changelog for kbet calculation fix\n\n* [pre-commit.ci] auto fixes from pre-commit.com hooks\n\nfor more information, see https://pre-commit.ci\n\n---------\n\nCo-authored-by: pre-commit-ci[bot] <66853113+pre-commit-ci[bot]@users.noreply.github.com>",
"is_bot": false,
"headline": "Update changelog for kbet calculation fix (#256)",
"author_name": "Ori Kronfeld",
"author_login": "ori-kron-wis",
"committed_at": "2026-02-26T08:05:28Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "8eea92fd04c562ca3a825a2c92ebeb4269ae49a0",
"body": null,
"is_bot": false,
"headline": "Update CHANGELOG for version 0.5.9",
"author_name": "Ori Kronfeld",
"author_login": "ori-kron-wis",
"committed_at": "2026-02-26T08:03:05Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "93991f066bd0525b0f5e90d4e508e61e5534417b",
"body": null,
"is_bot": false,
"headline": "Bump version from 0.5.8 to 0.5.9",
"author_name": "Ori Kronfeld",
"author_login": "ori-kron-wis",
"committed_at": "2026-02-26T07:51:01Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "35232e59464b4654cc11f761ece9d6ac5403f5ef",
"body": "updates:\n- [github.com/astral-sh/ruff-pre-commit: v0.15.1 → v0.15.2](https://github.com/astral-sh/ruff-pre-commit/compare/v0.15.1...v0.15.2)\n- [github.com/kynan/nbstripout: 0.9.0 → 0.9.1](https://github.com/kynan/nbstripout/compare/0.9.0...0.9.1)\n\nCo-authored-by: pre-commit-ci[bot] <66853113+pre-commit-ci[bot]@users.noreply.github.com>",
"is_bot": true,
"headline": "[pre-commit.ci] pre-commit autoupdate (#255)",
"author_name": "pre-commit-ci[bot]",
"author_login": "pre-commit-ci[bot]",
"committed_at": "2026-02-24T07:48:26Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "0f10ca89b52eb3727fe31cfb097e925d8ea7c966",
"body": null,
"is_bot": false,
"headline": "update kbet calc with new numpy (#254)",
"author_name": "Ori Kronfeld",
"author_login": "ori-kron-wis",
"committed_at": "2026-02-22T15:18:20Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "d89a8c2bb4175d13ca303804e4877a606c0d7fd5",
"body": "updates:\n- [github.com/astral-sh/ruff-pre-commit: v0.15.0 → v0.15.1](https://github.com/astral-sh/ruff-pre-commit/compare/v0.15.0...v0.15.1)\n\nCo-authored-by: pre-commit-ci[bot] <66853113+pre-commit-ci[bot]@users.noreply.github.com>",
"is_bot": true,
"headline": "[pre-commit.ci] pre-commit autoupdate (#253)",
"author_name": "pre-commit-ci[bot]",
"author_login": "pre-commit-ci[bot]",
"committed_at": "2026-02-17T10:18:36Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "7e4993376bc664f0062120784bdb348a6f7aaa02",
"body": "* [pre-commit.ci] pre-commit autoupdate\n\nupdates:\n- [github.com/astral-sh/ruff-pre-commit: v0.14.14 → v0.15.0](https://github.com/astral-sh/ruff-pre-commit/compare/v0.14.14...v0.15.0)\n\n* [pre-commit.ci] auto fixes from pre-commit.com hooks\n\nfor more information, see https://pre-commit.ci\n\n---------\n\nCo-authored-by: pre-commit-ci[bot] <66853113+pre-commit-ci[bot]@users.noreply.github.com>",
"is_bot": true,
"headline": "[pre-commit.ci] pre-commit autoupdate (#252)",
"author_name": "pre-commit-ci[bot]",
"author_login": "pre-commit-ci[bot]",
"committed_at": "2026-02-10T07:04:08Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "14c5e347b16f72381a92b74354a4e8119b862381",
"body": "Added citation information for scib-metrics and original benchmarking work.",
"is_bot": false,
"headline": "Update README with citation details",
"author_name": "Adam Gayoso",
"author_login": "adamgayoso",
"committed_at": "2026-02-06T10:05:34Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "0d554a96805c35ba3d228e5e1fd844361ba816d1",
"body": "updates:\n- [github.com/astral-sh/ruff-pre-commit: v0.14.13 → v0.14.14](https://github.com/astral-sh/ruff-pre-commit/compare/v0.14.13...v0.14.14)\n\nCo-authored-by: pre-commit-ci[bot] <66853113+pre-commit-ci[bot]@users.noreply.github.com>",
"is_bot": true,
"headline": "[pre-commit.ci] pre-commit autoupdate (#251)",
"author_name": "pre-commit-ci[bot]",
"author_login": "pre-commit-ci[bot]",
"committed_at": "2026-01-26T21:30:40Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "24e35fb69c00b9ab729f432207315c6d5757501f",
"body": "updates:\n- [github.com/astral-sh/ruff-pre-commit: v0.14.11 → v0.14.13](https://github.com/astral-sh/ruff-pre-commit/compare/v0.14.11...v0.14.13)\n- [github.com/kynan/nbstripout: 0.8.2 → 0.9.0](https://github.com/kynan/nbstripout/compare/0.8.2...0.9.0)\n\nCo-authored-by: pre-commit-ci[bot] <66853113+pre-commit-ci[bot]@users.noreply.github.com>",
"is_bot": true,
"headline": "[pre-commit.ci] pre-commit autoupdate (#250)",
"author_name": "pre-commit-ci[bot]",
"author_login": "pre-commit-ci[bot]",
"committed_at": "2026-01-21T07:32:34Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "e8af0b306c1600d3cdf903454db711da3d22491a",
"body": "updates:\n- [github.com/astral-sh/ruff-pre-commit: v0.14.10 → v0.14.11](https://github.com/astral-sh/ruff-pre-commit/compare/v0.14.10...v0.14.11)\n\nCo-authored-by: pre-commit-ci[bot] <66853113+pre-commit-ci[bot]@users.noreply.github.com>",
"is_bot": true,
"headline": "[pre-commit.ci] pre-commit autoupdate (#249)",
"author_name": "pre-commit-ci[bot]",
"author_login": "pre-commit-ci[bot]",
"committed_at": "2026-01-12T20:41:59Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "f5a9530792caa50e34451065254f2ddb73bd0886",
"body": "* [pre-commit.ci] pre-commit autoupdate\n\nupdates:\n- [github.com/astral-sh/ruff-pre-commit: v0.14.8 → v0.14.10](https://github.com/astral-sh/ruff-pre-commit/compare/v0.14.8...v0.14.10)\n\n* Update pyproject.toml\n\n---------\n\nCo-authored-by: pre-commit-ci[bot] <66853113+pre-commit-ci[bot]@users.noreply.github.com>\nCo-authored-by: Ori Kronfeld <ori.kronfeld@weizmann.ac.il>",
"is_bot": true,
"headline": "[pre-commit.ci] pre-commit autoupdate (#247)",
"author_name": "pre-commit-ci[bot]",
"author_login": "pre-commit-ci[bot]",
"committed_at": "2025-12-23T10:09:16Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "918e45a154130f20006044ce52aa10cba581e9b9",
"body": "updates:\n- [github.com/astral-sh/ruff-pre-commit: v0.14.7 → v0.14.8](https://github.com/astral-sh/ruff-pre-commit/compare/v0.14.7...v0.14.8)\n\nCo-authored-by: pre-commit-ci[bot] <66853113+pre-commit-ci[bot]@users.noreply.github.com>",
"is_bot": true,
"headline": "[pre-commit.ci] pre-commit autoupdate (#246)",
"author_name": "pre-commit-ci[bot]",
"author_login": "pre-commit-ci[bot]",
"committed_at": "2025-12-08T21:41:26Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "4ef9a52296238318433bfc9a10e59bf9076d0cc9",
"body": "updates:\n- [github.com/astral-sh/ruff-pre-commit: v0.14.6 → v0.14.7](https://github.com/astral-sh/ruff-pre-commit/compare/v0.14.6...v0.14.7)\n\nCo-authored-by: pre-commit-ci[bot] <66853113+pre-commit-ci[bot]@users.noreply.github.com>",
"is_bot": true,
"headline": "[pre-commit.ci] pre-commit autoupdate (#245)",
"author_name": "pre-commit-ci[bot]",
"author_login": "pre-commit-ci[bot]",
"committed_at": "2025-12-02T07:29:27Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "366130096138df0484fe8fa8a179381410b43336",
"body": "updates:\n- [github.com/astral-sh/ruff-pre-commit: v0.14.5 → v0.14.6](https://github.com/astral-sh/ruff-pre-commit/compare/v0.14.5...v0.14.6)\n\nCo-authored-by: pre-commit-ci[bot] <66853113+pre-commit-ci[bot]@users.noreply.github.com>",
"is_bot": true,
"headline": "[pre-commit.ci] pre-commit autoupdate (#244)",
"author_name": "pre-commit-ci[bot]",
"author_login": "pre-commit-ci[bot]",
"committed_at": "2025-11-25T07:20:26Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "66889d55020b9d54503d1e87936bf4e058b2b4f4",
"body": "updates:\n- [github.com/astral-sh/ruff-pre-commit: v0.14.4 → v0.14.5](https://github.com/astral-sh/ruff-pre-commit/compare/v0.14.4...v0.14.5)\n- [github.com/kynan/nbstripout: 0.8.1 → 0.8.2](https://github.com/kynan/nbstripout/compare/0.8.1...0.8.2)\n\nCo-authored-by: pre-commit-ci[bot] <66853113+pre-commit-ci[bot]@users.noreply.github.com>",
"is_bot": true,
"headline": "[pre-commit.ci] pre-commit autoupdate (#243)",
"author_name": "pre-commit-ci[bot]",
"author_login": "pre-commit-ci[bot]",
"committed_at": "2025-11-18T09:54:50Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "db3df0b577cd75b80bf192371f17dfc8c81fb683",
"body": "updates:\n- [github.com/astral-sh/ruff-pre-commit: v0.14.3 → v0.14.4](https://github.com/astral-sh/ruff-pre-commit/compare/v0.14.3...v0.14.4)\n\nCo-authored-by: pre-commit-ci[bot] <66853113+pre-commit-ci[bot]@users.noreply.github.com>",
"is_bot": true,
"headline": "[pre-commit.ci] pre-commit autoupdate (#242)",
"author_name": "pre-commit-ci[bot]",
"author_login": "pre-commit-ci[bot]",
"committed_at": "2025-11-11T07:51:05Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "d709e227b19013cac48ecdb0cb15c8096fb1ffb8",
"body": "updates:\n- [github.com/astral-sh/ruff-pre-commit: v0.14.2 → v0.14.3](https://github.com/astral-sh/ruff-pre-commit/compare/v0.14.2...v0.14.3)\n\nCo-authored-by: pre-commit-ci[bot] <66853113+pre-commit-ci[bot]@users.noreply.github.com>",
"is_bot": true,
"headline": "[pre-commit.ci] pre-commit autoupdate (#241)",
"author_name": "pre-commit-ci[bot]",
"author_login": "pre-commit-ci[bot]",
"committed_at": "2025-11-04T06:59:44Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "c0b2d7f5bfd257932d6ad9659404b501f1939256",
"body": "* Added set seed for all leiden metric calcualtions options\n\n* [pre-commit.ci] auto fixes from pre-commit.com hooks\n\nfor more information, see https://pre-commit.ci\n\n---------\n\nCo-authored-by: pre-commit-ci[bot] <66853113+pre-commit-ci[bot]@users.noreply.github.com>",
"is_bot": false,
"headline": "Fix: set seed for Leiden clustering (#240)",
"author_name": "Ori Kronfeld",
"author_login": "ori-kron-wis",
"committed_at": "2025-10-30T06:53:31Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "0404e63b35e526132b29aefa607093df7feaa324",
"body": "updates:\n- [github.com/astral-sh/ruff-pre-commit: v0.14.1 → v0.14.2](https://github.com/astral-sh/ruff-pre-commit/compare/v0.14.1...v0.14.2)\n\nCo-authored-by: pre-commit-ci[bot] <66853113+pre-commit-ci[bot]@users.noreply.github.com>",
"is_bot": true,
"headline": "[pre-commit.ci] pre-commit autoupdate (#239)",
"author_name": "pre-commit-ci[bot]",
"author_login": "pre-commit-ci[bot]",
"committed_at": "2025-10-28T12:31:11Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "5f806c3ed539d6367770e34ff418c4d7235455bf",
"body": "updates:\n- [github.com/astral-sh/ruff-pre-commit: v0.14.0 → v0.14.1](https://github.com/astral-sh/ruff-pre-commit/compare/v0.14.0...v0.14.1)\n\nCo-authored-by: pre-commit-ci[bot] <66853113+pre-commit-ci[bot]@users.noreply.github.com>",
"is_bot": true,
"headline": "[pre-commit.ci] pre-commit autoupdate (#238)",
"author_name": "pre-commit-ci[bot]",
"author_login": "pre-commit-ci[bot]",
"committed_at": "2025-10-21T06:04:31Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "a3a8da40a5c58bf19789de58966fb0d638a6290a",
"body": "updates:\n- [github.com/astral-sh/ruff-pre-commit: v0.13.2 → v0.14.0](https://github.com/astral-sh/ruff-pre-commit/compare/v0.13.2...v0.14.0)\n\nCo-authored-by: pre-commit-ci[bot] <66853113+pre-commit-ci[bot]@users.noreply.github.com>",
"is_bot": true,
"headline": "[pre-commit.ci] pre-commit autoupdate (#237)",
"author_name": "pre-commit-ci[bot]",
"author_login": "pre-commit-ci[bot]",
"committed_at": "2025-10-15T07:39:00Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "42107f2450943aba526db3dd23434f49fef8a1fa",
"body": "updates:\n- [github.com/astral-sh/ruff-pre-commit: v0.13.1 → v0.13.2](https://github.com/astral-sh/ruff-pre-commit/compare/v0.13.1...v0.13.2)\n\nCo-authored-by: pre-commit-ci[bot] <66853113+pre-commit-ci[bot]@users.noreply.github.com>",
"is_bot": true,
"headline": "[pre-commit.ci] pre-commit autoupdate (#235)",
"author_name": "pre-commit-ci[bot]",
"author_login": "pre-commit-ci[bot]",
"committed_at": "2025-09-30T06:07:21Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "e450f9a56259d0a7197b53d90014fdacc7a39fee",
"body": "updates:\n- [github.com/astral-sh/ruff-pre-commit: v0.13.0 → v0.13.1](https://github.com/astral-sh/ruff-pre-commit/compare/v0.13.0...v0.13.1)\n\nCo-authored-by: pre-commit-ci[bot] <66853113+pre-commit-ci[bot]@users.noreply.github.com>",
"is_bot": true,
"headline": "[pre-commit.ci] pre-commit autoupdate (#233)",
"author_name": "pre-commit-ci[bot]",
"author_login": "pre-commit-ci[bot]",
"committed_at": "2025-09-25T05:34:33Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "b82f1b916ec288ae6f1da67ce3fef512cd0adb9b",
"body": "updates:\n- [github.com/astral-sh/ruff-pre-commit: v0.12.12 → v0.13.0](https://github.com/astral-sh/ruff-pre-commit/compare/v0.12.12...v0.13.0)\n\nCo-authored-by: pre-commit-ci[bot] <66853113+pre-commit-ci[bot]@users.noreply.github.com>",
"is_bot": true,
"headline": "[pre-commit.ci] pre-commit autoupdate (#230)",
"author_name": "pre-commit-ci[bot]",
"author_login": "pre-commit-ci[bot]",
"committed_at": "2025-09-16T09:56:31Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "83de2a79a04bdbbb1a4b77b40e18af6f48c5d0fd",
"body": "…es + moving to py313 (#229)\n\n* added solver selection to benchmarker for arpack stability issues\n\n* [pre-commit.ci] auto fixes from pre-commit.com hooks\n\nfor more information, see https://pre-commit.ci\n\n* also removed py3.10 and added py3.13\n\n* update RTD python ver\n\n---------\n\nCo-authored-by: pre-commit-ci[bot] <66853113+pre-commit-ci[bot]@users.noreply.github.com>",
"is_bot": false,
"headline": "feat: added solver selection to benchmarker for arpack stability issu…",
"author_name": "Ori Kronfeld",
"author_login": "ori-kron-wis",
"committed_at": "2025-09-14T07:17:26Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "2c0b934b6272ae9d55a68bcbd9b4690f5e2d81c8",
"body": "updates:\n- [github.com/astral-sh/ruff-pre-commit: v0.12.10 → v0.12.12](https://github.com/astral-sh/ruff-pre-commit/compare/v0.12.10...v0.12.12)\n\nCo-authored-by: pre-commit-ci[bot] <66853113+pre-commit-ci[bot]@users.noreply.github.com>",
"is_bot": true,
"headline": "[pre-commit.ci] pre-commit autoupdate (#228)",
"author_name": "pre-commit-ci[bot]",
"author_login": "pre-commit-ci[bot]",
"committed_at": "2025-09-09T06:23:57Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "177dd252658fc2af059c3c21769a8d3bf721b796",
"body": "updates:\n- [github.com/astral-sh/ruff-pre-commit: v0.12.9 → v0.12.10](https://github.com/astral-sh/ruff-pre-commit/compare/v0.12.9...v0.12.10)\n\nCo-authored-by: pre-commit-ci[bot] <66853113+pre-commit-ci[bot]@users.noreply.github.com>",
"is_bot": true,
"headline": "[pre-commit.ci] pre-commit autoupdate (#227)",
"author_name": "pre-commit-ci[bot]",
"author_login": "pre-commit-ci[bot]",
"committed_at": "2025-09-01T06:32:05Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "06a1f2c8c10d24ddb7c05d2871dd6114fb588a6c",
"body": "updates:\n- [github.com/astral-sh/ruff-pre-commit: v0.12.8 → v0.12.9](https://github.com/astral-sh/ruff-pre-commit/compare/v0.12.8...v0.12.9)\n\nCo-authored-by: pre-commit-ci[bot] <66853113+pre-commit-ci[bot]@users.noreply.github.com>",
"is_bot": true,
"headline": "[pre-commit.ci] pre-commit autoupdate (#226)",
"author_name": "pre-commit-ci[bot]",
"author_login": "pre-commit-ci[bot]",
"committed_at": "2025-08-19T05:57:06Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "bb473d4e03f0a37de93807dd44a0299c1ad8607a",
"body": "updates:\n- [github.com/astral-sh/ruff-pre-commit: v0.12.7 → v0.12.8](https://github.com/astral-sh/ruff-pre-commit/compare/v0.12.7...v0.12.8)\n- [github.com/pre-commit/pre-commit-hooks: v5.0.0 → v6.0.0](https://github.com/pre-commit/pre-commit-hooks/compare/v5.0.0...v6.0.0)\n\nCo-authored-by: pre-commit-ci[bot] <66853113+pre-commit-ci[bot]@users.noreply.github.com>",
"is_bot": true,
"headline": "[pre-commit.ci] pre-commit autoupdate (#225)",
"author_name": "pre-commit-ci[bot]",
"author_login": "pre-commit-ci[bot]",
"committed_at": "2025-08-12T05:35:28Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "b9590642a65224e2888e28e0699e0b194ae8aefb",
"body": "updates:\n- [github.com/astral-sh/ruff-pre-commit: v0.12.5 → v0.12.7](https://github.com/astral-sh/ruff-pre-commit/compare/v0.12.5...v0.12.7)\n\nCo-authored-by: pre-commit-ci[bot] <66853113+pre-commit-ci[bot]@users.noreply.github.com>",
"is_bot": true,
"headline": "[pre-commit.ci] pre-commit autoupdate (#223)",
"author_name": "pre-commit-ci[bot]",
"author_login": "pre-commit-ci[bot]",
"committed_at": "2025-08-05T06:10:07Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "f872405579c9b954f70ff248b9965c58c965e6b7",
"body": "updates:\n- [github.com/astral-sh/ruff-pre-commit: v0.12.4 → v0.12.5](https://github.com/astral-sh/ruff-pre-commit/compare/v0.12.4...v0.12.5)\n\nCo-authored-by: pre-commit-ci[bot] <66853113+pre-commit-ci[bot]@users.noreply.github.com>",
"is_bot": true,
"headline": "[pre-commit.ci] pre-commit autoupdate (#222)",
"author_name": "pre-commit-ci[bot]",
"author_login": "pre-commit-ci[bot]",
"committed_at": "2025-07-31T10:01:03Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "a79ad9fc94abac002cc335868e9c606ab3db85b4",
"body": "updates:\n- [github.com/astral-sh/ruff-pre-commit: v0.12.3 → v0.12.4](https://github.com/astral-sh/ruff-pre-commit/compare/v0.12.3...v0.12.4)\n\nCo-authored-by: pre-commit-ci[bot] <66853113+pre-commit-ci[bot]@users.noreply.github.com>",
"is_bot": true,
"headline": "[pre-commit.ci] pre-commit autoupdate (#221)",
"author_name": "pre-commit-ci[bot]",
"author_login": "pre-commit-ci[bot]",
"committed_at": "2025-07-22T10:26:25Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "4ec7832d385dbdcdc4b64f7826f413f831f5597c",
"body": "updates:\n- [github.com/astral-sh/ruff-pre-commit: v0.12.2 → v0.12.3](https://github.com/astral-sh/ruff-pre-commit/compare/v0.12.2...v0.12.3)\n\nCo-authored-by: pre-commit-ci[bot] <66853113+pre-commit-ci[bot]@users.noreply.github.com>",
"is_bot": true,
"headline": "[pre-commit.ci] pre-commit autoupdate (#220)",
"author_name": "pre-commit-ci[bot]",
"author_login": "pre-commit-ci[bot]",
"committed_at": "2025-07-15T06:32:31Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "de7edbac0be6241c1229efee575730856d408e0f",
"body": "* adding BRAS to benchmarker\n\n* added to benchmarker\n\n* added a flag for _compute_neighbors\n\n* added a flag for _compute_neighbors\n\n* chanlog\n\n* chanlog",
"is_bot": false,
"headline": "feat: adding BRAS to benchmarker (#217)",
"author_name": "Ori Kronfeld",
"author_login": "ori-kron-wis",
"committed_at": "2025-07-08T12:29:41Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "872d50eafba1d8a48958fc0d5ae620fb9fc3f9d0",
"body": "updates:\n- [github.com/astral-sh/ruff-pre-commit: v0.12.1 → v0.12.2](https://github.com/astral-sh/ruff-pre-commit/compare/v0.12.1...v0.12.2)\n\nCo-authored-by: pre-commit-ci[bot] <66853113+pre-commit-ci[bot]@users.noreply.github.com>",
"is_bot": true,
"headline": "[pre-commit.ci] pre-commit autoupdate (#216)",
"author_name": "pre-commit-ci[bot]",
"author_login": "pre-commit-ci[bot]",
"committed_at": "2025-07-08T06:12:07Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "a9695893012247252901167336e277906c548418",
"body": null,
"is_bot": false,
"headline": "min_max_scale=False should be default in .get_results (#215)",
"author_name": "Ori Kronfeld",
"author_login": "ori-kron-wis",
"committed_at": "2025-07-07T12:39:47Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "a639cbcb7f85c0a8ae7119a54c7bc6e0a7493f65",
"body": "This reverts commit 343cb8fca0500f38c134aac7e6d5dd40b8781dd1.\n\nCo-authored-by: Ori Kronfeld <ori.kronfeld@weizmann.ac.il>",
"is_bot": false,
"headline": "Revert \"Skip labels before loop (#180)\" (#213)",
"author_name": "Adam Gayoso",
"author_login": "adamgayoso",
"committed_at": "2025-07-07T12:25:22Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "51ad6873b90e960183848893625bc2793d74d303",
"body": "updates:\n- [github.com/astral-sh/ruff-pre-commit: v0.12.0 → v0.12.1](https://github.com/astral-sh/ruff-pre-commit/compare/v0.12.0...v0.12.1)\n\nCo-authored-by: pre-commit-ci[bot] <66853113+pre-commit-ci[bot]@users.noreply.github.com>",
"is_bot": true,
"headline": "[pre-commit.ci] pre-commit autoupdate (#214)",
"author_name": "pre-commit-ci[bot]",
"author_login": "pre-commit-ci[bot]",
"committed_at": "2025-07-01T10:13:50Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "268cd9d5ae6c75f74677fc78bcbdb2f0ee3bfb24",
"body": "updates:\n- [github.com/astral-sh/ruff-pre-commit: v0.11.13 → v0.12.0](https://github.com/astral-sh/ruff-pre-commit/compare/v0.11.13...v0.12.0)\n\nCo-authored-by: pre-commit-ci[bot] <66853113+pre-commit-ci[bot]@users.noreply.github.com>",
"is_bot": true,
"headline": "[pre-commit.ci] pre-commit autoupdate (#211)",
"author_name": "pre-commit-ci[bot]",
"author_login": "pre-commit-ci[bot]",
"committed_at": "2025-06-26T08:37:45Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "e76555e2ff494f81cdc2652216622e8f83e7befa",
"body": "updates:\n- [github.com/astral-sh/ruff-pre-commit: v0.11.12 → v0.11.13](https://github.com/astral-sh/ruff-pre-commit/compare/v0.11.12...v0.11.13)\n\nCo-authored-by: pre-commit-ci[bot] <66853113+pre-commit-ci[bot]@users.noreply.github.com>",
"is_bot": true,
"headline": "[pre-commit.ci] pre-commit autoupdate (#210)",
"author_name": "pre-commit-ci[bot]",
"author_login": "pre-commit-ci[bot]",
"committed_at": "2025-06-11T09:07:59Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "12b6f354ac0305c8c81859696ed57f7e3c75927c",
"body": "* Add fast BRAS implementation to scib-metrics package.\n\n* Fix edge cases for naive silhouette implementation, remove comment line and update CHANGELOG.md.\n\n* Apply suggestions from code review\r\n\r\nCorrected function referencing in CHANGELOG and docstrings.\n\nCo-authored-by: Adam Gayoso <adamgayoso@us\n[…]\nleased section.\n\n* Update pyproject.toml\n\n* Update CHANGELOG.md\n\n---------\n\nCo-authored-by: Adam Gayoso <adamgayoso@users.noreply.github.com>\nCo-authored-by: Ori Kronfeld <ori.kronfeld@weizmann.ac.il>",
"is_bot": false,
"headline": "Add fast BRAS implementation to scib-metrics package. (#197)",
"author_name": "prauten",
"author_login": "prauten",
"committed_at": "2025-06-03T11:01:59Z",
"body_truncated": true,
"is_coding_agent": false
},
{
"oid": "649362c4154cf134a81a53a4491b7cc951a13911",
"body": "updates:\n- [github.com/astral-sh/ruff-pre-commit: v0.11.11 → v0.11.12](https://github.com/astral-sh/ruff-pre-commit/compare/v0.11.11...v0.11.12)\n\nCo-authored-by: pre-commit-ci[bot] <66853113+pre-commit-ci[bot]@users.noreply.github.com>",
"is_bot": true,
"headline": "[pre-commit.ci] pre-commit autoupdate (#209)",
"author_name": "pre-commit-ci[bot]",
"author_login": "pre-commit-ci[bot]",
"committed_at": "2025-06-03T08:51:37Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "5d01bb46f4d2317b4b3379851c7202df5be36c68",
"body": "updates:\n- [github.com/astral-sh/ruff-pre-commit: v0.11.10 → v0.11.11](https://github.com/astral-sh/ruff-pre-commit/compare/v0.11.10...v0.11.11)\n\nCo-authored-by: pre-commit-ci[bot] <66853113+pre-commit-ci[bot]@users.noreply.github.com>",
"is_bot": true,
"headline": "[pre-commit.ci] pre-commit autoupdate (#208)",
"author_name": "pre-commit-ci[bot]",
"author_login": "pre-commit-ci[bot]",
"committed_at": "2025-05-27T06:45:21Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "86df19892555a5acf827c86bd2321ebb3249db6e",
"body": "updates:\n- [github.com/astral-sh/ruff-pre-commit: v0.11.8 → v0.11.10](https://github.com/astral-sh/ruff-pre-commit/compare/v0.11.8...v0.11.10)\n\nCo-authored-by: pre-commit-ci[bot] <66853113+pre-commit-ci[bot]@users.noreply.github.com>",
"is_bot": true,
"headline": "[pre-commit.ci] pre-commit autoupdate (#207)",
"author_name": "pre-commit-ci[bot]",
"author_login": "pre-commit-ci[bot]",
"committed_at": "2025-05-22T07:48:44Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "51cbe344f6ccbd61341362fca37148f7d720e021",
"body": "updates:\n- [github.com/astral-sh/ruff-pre-commit: v0.11.7 → v0.11.8](https://github.com/astral-sh/ruff-pre-commit/compare/v0.11.7...v0.11.8)\n\nCo-authored-by: pre-commit-ci[bot] <66853113+pre-commit-ci[bot]@users.noreply.github.com>",
"is_bot": true,
"headline": "[pre-commit.ci] pre-commit autoupdate (#206)",
"author_name": "pre-commit-ci[bot]",
"author_login": "pre-commit-ci[bot]",
"committed_at": "2025-05-08T09:11:02Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "2432e6c7fb0a1a47ccca677292282c038ba5b663",
"body": "updates:\n- [github.com/astral-sh/ruff-pre-commit: v0.11.6 → v0.11.7](https://github.com/astral-sh/ruff-pre-commit/compare/v0.11.6...v0.11.7)\n\nCo-authored-by: pre-commit-ci[bot] <66853113+pre-commit-ci[bot]@users.noreply.github.com>",
"is_bot": true,
"headline": "[pre-commit.ci] pre-commit autoupdate (#204)",
"author_name": "pre-commit-ci[bot]",
"author_login": "pre-commit-ci[bot]",
"committed_at": "2025-04-29T06:33:45Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "a4938c1ae21e09e79d21c180d2fab401bb0dbd85",
"body": "* update to bio_conservation_metrics, batch_correction_metrics deafult values\n\n* added log and test\n\n* typo",
"is_bot": false,
"headline": "fix: update default init values for benchmarker (#203)",
"author_name": "Ori Kronfeld",
"author_login": "ori-kron-wis",
"committed_at": "2025-04-23T06:13:21Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "fc28c2a62276ca00c0ccc02f383187b77219cfe3",
"body": "updates:\n- [github.com/astral-sh/ruff-pre-commit: v0.11.5 → v0.11.6](https://github.com/astral-sh/ruff-pre-commit/compare/v0.11.5...v0.11.6)\n\nCo-authored-by: pre-commit-ci[bot] <66853113+pre-commit-ci[bot]@users.noreply.github.com>",
"is_bot": true,
"headline": "[pre-commit.ci] pre-commit autoupdate (#202)",
"author_name": "pre-commit-ci[bot]",
"author_login": "pre-commit-ci[bot]",
"committed_at": "2025-04-23T05:55:08Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "1e8fab75307b6f954d5583431c1a61ea193601db",
"body": "updates:\n- [github.com/astral-sh/ruff-pre-commit: v0.11.4 → v0.11.5](https://github.com/astral-sh/ruff-pre-commit/compare/v0.11.4...v0.11.5)\n\nCo-authored-by: pre-commit-ci[bot] <66853113+pre-commit-ci[bot]@users.noreply.github.com>",
"is_bot": true,
"headline": "[pre-commit.ci] pre-commit autoupdate (#201)",
"author_name": "pre-commit-ci[bot]",
"author_login": "pre-commit-ci[bot]",
"committed_at": "2025-04-20T07:39:27Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "c82456e8748f0798f8b1d3fac17f6e96cbbd9f59",
"body": "updates:\n- [github.com/astral-sh/ruff-pre-commit: v0.11.2 → v0.11.4](https://github.com/astral-sh/ruff-pre-commit/compare/v0.11.2...v0.11.4)\n\nCo-authored-by: pre-commit-ci[bot] <66853113+pre-commit-ci[bot]@users.noreply.github.com>",
"is_bot": true,
"headline": "[pre-commit.ci] pre-commit autoupdate (#199)",
"author_name": "pre-commit-ci[bot]",
"author_login": "pre-commit-ci[bot]",
"committed_at": "2025-04-10T10:20:05Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "343cb8fca0500f38c134aac7e6d5dd40b8781dd1",
"body": "Co-authored-by: Adam Gayoso <adamgayoso@users.noreply.github.com>",
"is_bot": false,
"headline": "Skip labels before loop (#180)",
"author_name": "John Arevalo",
"author_login": "johnarevalo",
"committed_at": "2025-04-06T20:18:54Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "2bc648d99a917fce319edb129c66c1de100b31a2",
"body": null,
"is_bot": false,
"headline": "Update CHANGELOG.md (#196)",
"author_name": "Ori Kronfeld",
"author_login": "ori-kron-wis",
"committed_at": "2025-03-30T07:13:47Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "44ea38a16b7e08f310e8b4b02181a7e127867bc6",
"body": "updates:\n- [github.com/astral-sh/ruff-pre-commit: v0.11.0 → v0.11.2](https://github.com/astral-sh/ruff-pre-commit/compare/v0.11.0...v0.11.2)\n\nCo-authored-by: pre-commit-ci[bot] <66853113+pre-commit-ci[bot]@users.noreply.github.com>",
"is_bot": true,
"headline": "[pre-commit.ci] pre-commit autoupdate (#195)",
"author_name": "pre-commit-ci[bot]",
"author_login": "pre-commit-ci[bot]",
"committed_at": "2025-03-28T13:42:53Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "2471c5011a487b0aa4703945f47b4c17cfe7e1f5",
"body": "updates:\n- [github.com/astral-sh/ruff-pre-commit: v0.9.9 → v0.11.0](https://github.com/astral-sh/ruff-pre-commit/compare/v0.9.9...v0.11.0)\n\nCo-authored-by: pre-commit-ci[bot] <66853113+pre-commit-ci[bot]@users.noreply.github.com>",
"is_bot": true,
"headline": "[pre-commit.ci] pre-commit autoupdate (#194)",
"author_name": "pre-commit-ci[bot]",
"author_login": "pre-commit-ci[bot]",
"committed_at": "2025-03-18T08:21:06Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "aef5a7686ca429dec0b6eb434410e41a28f8910e",
"body": "updates:\n- [github.com/astral-sh/ruff-pre-commit: v0.9.7 → v0.9.9](https://github.com/astral-sh/ruff-pre-commit/compare/v0.9.7...v0.9.9)\n\nCo-authored-by: pre-commit-ci[bot] <66853113+pre-commit-ci[bot]@users.noreply.github.com>",
"is_bot": true,
"headline": "[pre-commit.ci] pre-commit autoupdate (#191)",
"author_name": "pre-commit-ci[bot]",
"author_login": "pre-commit-ci[bot]",
"committed_at": "2025-03-04T07:44:51Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "82d67b8e77389088b3c572f82a83de0ea3f436f4",
"body": "updates:\n- [github.com/astral-sh/ruff-pre-commit: v0.9.6 → v0.9.7](https://github.com/astral-sh/ruff-pre-commit/compare/v0.9.6...v0.9.7)\n\nCo-authored-by: pre-commit-ci[bot] <66853113+pre-commit-ci[bot]@users.noreply.github.com>",
"is_bot": true,
"headline": "[pre-commit.ci] pre-commit autoupdate (#190)",
"author_name": "pre-commit-ci[bot]",
"author_login": "pre-commit-ci[bot]",
"committed_at": "2025-02-25T07:40:03Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "e4033d400b2e955a2086dda9b6a3535057c4e4c8",
"body": null,
"is_bot": false,
"headline": "Update pyproject.toml",
"author_name": "Ori Kronfeld",
"author_login": "ori-kron-wis",
"committed_at": "2025-02-17T10:03:43Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "e22f3746c1fae1b1c176480802d392bf667968eb",
"body": null,
"is_bot": false,
"headline": "Update pyproject.toml",
"author_name": "Ori Kronfeld",
"author_login": "ori-kron-wis",
"committed_at": "2025-02-17T09:59:04Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "3b70c9850a46ab60ae9e71924a03e2b0eadf77e5",
"body": null,
"is_bot": false,
"headline": "Update _core.py (#189)",
"author_name": "Ori Kronfeld",
"author_login": "ori-kron-wis",
"committed_at": "2025-02-17T09:52:07Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "d7f3df76b796788a4d7b1a5a64e41dc0fd084bdf",
"body": "* [pre-commit.ci] pre-commit autoupdate\r\n\r\nupdates:\r\n- [github.com/astral-sh/ruff-pre-commit: v0.7.3 → v0.9.6](https://github.com/astral-sh/ruff-pre-commit/compare/v0.7.3...v0.9.6)\r\n- [github.com/kynan/nbstripout: 0.8.0 → 0.8.1](https://github.com/kynan/nbstripout/compare/0.8.0...0.8.1)\r\n\r\n* [pre-co\n[…]\nrmation, see https://pre-commit.ci\r\n\r\n---------\r\n\r\nCo-authored-by: pre-commit-ci[bot] <66853113+pre-commit-ci[bot]@users.noreply.github.com>\r\nCo-authored-by: Ori Kronfeld <ori.kronfeld@weizmann.ac.il>",
"is_bot": true,
"headline": "[pre-commit.ci] pre-commit autoupdate (#185)",
"author_name": "pre-commit-ci[bot]",
"author_login": "pre-commit-ci[bot]",
"committed_at": "2025-02-12T22:17:21Z",
"body_truncated": true,
"is_coding_agent": false
},
{
"oid": "721695c2350187a0ca5c4f0f579da2b4563b2f8b",
"body": "* added option for missing group of metrics and fill in with 0.5\r\n\r\n* [pre-commit.ci] auto fixes from pre-commit.com hooks\r\n\r\nfor more information, see https://pre-commit.ci\r\n\r\n* tests fixes\r\n\r\n* tests fixes2\r\n\r\n* [pre-commit.ci] auto fixes from pre-commit.com hooks\r\n\r\nfor more information, see https://pre-commit.ci\r\n\r\n* add changlog\r\n\r\n---------\r\n\r\nCo-authored-by: pre-commit-ci[bot] <66853113+pre-commit-ci[bot]@users.noreply.github.com>",
"is_bot": false,
"headline": "feat: support scvi-tools scib-metric autotune (#188)",
"author_name": "Ori Kronfeld",
"author_login": "ori-kron-wis",
"committed_at": "2025-02-12T22:12:11Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "8cf4fafe422a7efcb501ca77efd3b47a2fb01d92",
"body": "updates:\r\n- [github.com/astral-sh/ruff-pre-commit: v0.7.2 → v0.7.3](https://github.com/astral-sh/ruff-pre-commit/compare/v0.7.2...v0.7.3)\r\n\r\nCo-authored-by: pre-commit-ci[bot] <66853113+pre-commit-ci[bot]@users.noreply.github.com>",
"is_bot": true,
"headline": "[pre-commit.ci] pre-commit autoupdate (#184)",
"author_name": "pre-commit-ci[bot]",
"author_login": "pre-commit-ci[bot]",
"committed_at": "2024-11-18T07:57:13Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "d5f8a81ebe13d99d1b4ebc5ed5bfcc7a58c4f15f",
"body": "updates:\r\n- [github.com/astral-sh/ruff-pre-commit: v0.7.1 → v0.7.2](https://github.com/astral-sh/ruff-pre-commit/compare/v0.7.1...v0.7.2)\r\n- [github.com/kynan/nbstripout: 0.7.1 → 0.8.0](https://github.com/kynan/nbstripout/compare/0.7.1...0.8.0)\r\n\r\nCo-authored-by: pre-commit-ci[bot] <66853113+pre-commit-ci[bot]@users.noreply.github.com>",
"is_bot": true,
"headline": "[pre-commit.ci] pre-commit autoupdate (#183)",
"author_name": "pre-commit-ci[bot]",
"author_login": "pre-commit-ci[bot]",
"committed_at": "2024-11-10T18:26:20Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "2ffccb4318ba985f2395c005064c225c4197f822",
"body": "* Update _lisi.py\r\n\r\n* Update _lisi.py\r\n\r\n* Update CHANGELOG.md\r\n\r\n* Update CHANGELOG.md",
"is_bot": false,
"headline": "Fix Lisi return type and docstring (#182)",
"author_name": "Adam Gayoso",
"author_login": "adamgayoso",
"committed_at": "2024-11-04T08:46:05Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "e31aa1cc7f8c6e8e3332369519aed7dfd6b1f15b",
"body": "… work with bio/batch separately. (#181)\n\n\r\n---------\r\n\r\nCo-authored-by: pre-commit-ci[bot] <66853113+pre-commit-ci[bot]@users.noreply.github.com>",
"is_bot": false,
"headline": "Change behavior of None default metrics and allow results/plotting to…",
"author_name": "Adam Gayoso",
"author_login": "adamgayoso",
"committed_at": "2024-11-04T08:01:59Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "a2575daea1d0491d80090edef5b2fa21371ee01f",
"body": "updates:\r\n- [github.com/astral-sh/ruff-pre-commit: v0.6.2 → v0.7.1](https://github.com/astral-sh/ruff-pre-commit/compare/v0.6.2...v0.7.1)\r\n- [github.com/pre-commit/pre-commit-hooks: v4.6.0 → v5.0.0](https://github.com/pre-commit/pre-commit-hooks/compare/v4.6.0...v5.0.0)\r\n\r\nCo-authored-by: pre-commit-ci[bot] <66853113+pre-commit-ci[bot]@users.noreply.github.com>",
"is_bot": true,
"headline": "[pre-commit.ci] pre-commit autoupdate (#178)",
"author_name": "pre-commit-ci[bot]",
"author_login": "pre-commit-ci[bot]",
"committed_at": "2024-10-30T08:51:32Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "876e8fd1f581e466482f33980769de0d779f039f",
"body": "* Add more ruff rules\r\n\r\n* remove bandit\r\n\r\n* Add FA\r\n\r\n* fixes\r\n\r\n* Remove D400",
"is_bot": false,
"headline": "Add more ruff rules (#177)",
"author_name": "Adam Gayoso",
"author_login": "adamgayoso",
"committed_at": "2024-09-01T16:12:20Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "f41e4325c7750857fe201384a4c5128adc6a8875",
"body": "updates:\r\n- [github.com/astral-sh/ruff-pre-commit: v0.6.1 → v0.6.2](https://github.com/astral-sh/ruff-pre-commit/compare/v0.6.1...v0.6.2)\r\n\r\nCo-authored-by: pre-commit-ci[bot] <66853113+pre-commit-ci[bot]@users.noreply.github.com>",
"is_bot": true,
"headline": "[pre-commit.ci] pre-commit autoupdate (#176)",
"author_name": "pre-commit-ci[bot]",
"author_login": "pre-commit-ci[bot]",
"committed_at": "2024-08-29T07:02:29Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "ec7c55b20ac823615906c544eadf81bd65314e2c",
"body": "* Update _core.py\r\n\r\n* Update _lisi.py\r\n\r\n* Update sampling.py\r\n\r\n* [pre-commit.ci] auto fixes from pre-commit.com hooks\r\n\r\nfor more information, see https://pre-commit.ci\r\n\r\n---------\r\n\r\nCo-authored-by: pre-commit-ci[bot] <66853113+pre-commit-ci[bot]@users.noreply.github.com>",
"is_bot": false,
"headline": "Typing fixes (#174)",
"author_name": "Adam Gayoso",
"author_login": "adamgayoso",
"committed_at": "2024-08-22T08:12:27Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "6a2924f30dfc53146944cbece5fea264b25ae734",
"body": "* Update template to v0.4.0\r\n\r\n* [pre-commit.ci] auto fixes from pre-commit.com hooks\r\n\r\nfor more information, see https://pre-commit.ci\r\n\r\n* Delete README.md.rej\r\n\r\n* Delete docs/conf.py.rej\r\n\r\n* Update README.md\r\n\r\n* Update pyproject.toml\r\n\r\n* [pre-commit.ci] auto fixes from pre-commit.com hooks\r\n\n[…]\n----\r\n\r\nCo-authored-by: scverse-bot <None>\r\nCo-authored-by: pre-commit-ci[bot] <66853113+pre-commit-ci[bot]@users.noreply.github.com>\r\nCo-authored-by: Adam Gayoso <adamgayoso@users.noreply.github.com>",
"is_bot": false,
"headline": "Update template to v0.4.0 (#165)",
"author_name": "scverse-bot",
"author_login": "scverse-bot",
"committed_at": "2024-08-22T08:03:01Z",
"body_truncated": true,
"is_coding_agent": false
},
{
"oid": "081dff0dde6fa8e80ff06f5dc39a1bcae3f4b63a",
"body": "* Add seed to leiden clustering\r\n\r\n* Update _nmi_ari.py\r\n\r\n* [pre-commit.ci] auto fixes from pre-commit.com hooks\r\n\r\nfor more information, see https://pre-commit.ci\r\n\r\n* Update test_metrics.py\r\n\r\n* [pre-commit.ci] auto fixes from pre-commit.com hooks\r\n\r\nfor more information, see https://pre-commit.c\n[…]\nit.ci] auto fixes from pre-commit.com hooks\r\n\r\nfor more information, see https://pre-commit.ci\r\n\r\n---------\r\n\r\nCo-authored-by: pre-commit-ci[bot] <66853113+pre-commit-ci[bot]@users.noreply.github.com>",
"is_bot": false,
"headline": "Add seed to leiden clustering (#173)",
"author_name": "Adam Gayoso",
"author_login": "adamgayoso",
"committed_at": "2024-08-22T07:29:15Z",
"body_truncated": true,
"is_coding_agent": false
},
{
"oid": "c19679cc885287584f86e3b821266e0ec8b35d0a",
"body": "updates:\r\n- [github.com/astral-sh/ruff-pre-commit: v0.5.1 → v0.6.1](https://github.com/astral-sh/ruff-pre-commit/compare/v0.5.1...v0.6.1)\r\n\r\nCo-authored-by: pre-commit-ci[bot] <66853113+pre-commit-ci[bot]@users.noreply.github.com>\r\nCo-authored-by: Adam Gayoso <adamgayoso@users.noreply.github.com>",
"is_bot": true,
"headline": "[pre-commit.ci] pre-commit autoupdate (#169)",
"author_name": "pre-commit-ci[bot]",
"author_login": "pre-commit-ci[bot]",
"committed_at": "2024-08-22T06:38:15Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "96cb2c07c00114e88ab316c1f10988c53f68d508",
"body": "* Fix warnings\r\n\r\n* Update _nmi_ari.py\r\n\r\n* Update _kbet.py\r\n\r\n* Update CHANGELOG.md",
"is_bot": false,
"headline": "Fix warnings (#171)",
"author_name": "Adam Gayoso",
"author_login": "adamgayoso",
"committed_at": "2024-08-21T21:08:08Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "a04c58f2ca2b1bfd544a503f8987000a739d8612",
"body": "* Fix kmeans test instability\r\n\r\n* Update test_neighbors.py\r\n\r\n* Update test_metrics.py\r\n\r\n* Update CHANGELOG.md",
"is_bot": false,
"headline": "Fix kmeans test instability (#172)",
"author_name": "Adam Gayoso",
"author_login": "adamgayoso",
"committed_at": "2024-08-21T20:57:52Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "7482c062883303c05ebe34f11180f08fafb69ff1",
"body": "* Use new scanpy umap connectivity fn in test\r\n\r\n* Update test_neighbors.py\r\n\r\n* Update CHANGELOG.md",
"is_bot": false,
"headline": "Use new scanpy umap connectivity fn in test (#170)",
"author_name": "Adam Gayoso",
"author_login": "adamgayoso",
"committed_at": "2024-08-21T20:22:27Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "0071da9d2216487727286916aa275b2c6ca844cb",
"body": "updates:\r\n- [github.com/astral-sh/ruff-pre-commit: v0.4.10 → v0.5.1](https://github.com/astral-sh/ruff-pre-commit/compare/v0.4.10...v0.5.1)\r\n\r\nCo-authored-by: pre-commit-ci[bot] <66853113+pre-commit-ci[bot]@users.noreply.github.com>",
"is_bot": true,
"headline": "[pre-commit.ci] pre-commit autoupdate (#168)",
"author_name": "pre-commit-ci[bot]",
"author_login": "pre-commit-ci[bot]",
"committed_at": "2024-07-09T19:07:04Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "88d0c7a8c1d50dad805b297053f3bf2c203bf83a",
"body": "updates:\r\n- [github.com/astral-sh/ruff-pre-commit: v0.4.9 → v0.4.10](https://github.com/astral-sh/ruff-pre-commit/compare/v0.4.9...v0.4.10)\r\n\r\nCo-authored-by: pre-commit-ci[bot] <66853113+pre-commit-ci[bot]@users.noreply.github.com>",
"is_bot": true,
"headline": "[pre-commit.ci] pre-commit autoupdate (#167)",
"author_name": "pre-commit-ci[bot]",
"author_login": "pre-commit-ci[bot]",
"committed_at": "2024-06-25T16:38:14Z",
"body_truncated": false,
"is_coding_agent": false
}
],
"releases_count": 29,
"commits_last_year": 54,
"latest_release_at": "2026-07-13T07:05:47Z",
"latest_release_tag": "v0.5.10",
"releases_from_tags": false,
"days_since_last_push": 0,
"active_weeks_last_year": 38,
"days_since_latest_release": 8,
"mean_days_between_releases": 96.7
},
"community": {
"has_readme": true,
"has_license": true,
"has_description": true,
"has_contributing": true,
"health_percentage": 50,
"has_issue_template": false,
"has_code_of_conduct": false,
"has_pull_request_template": false
},
"ecosystem": {
"packages": [
{
"name": "scib-metrics",
"exists": true,
"license": null,
"keywords": [],
"ecosystem": "pypi",
"matches_repo": true,
"registry_url": "https://pypi.org/project/scib-metrics/",
"is_deprecated": false,
"latest_version": "0.5.10",
"repository_url": "https://github.com/yoseflab/scib-metrics",
"versions_count": 28,
"total_downloads": null,
"dependents_count": null,
"deprecation_note": null,
"maintainers_count": null,
"monthly_downloads": null,
"first_published_at": "2022-10-03T19:00:49.142781Z",
"latest_published_at": "2026-07-13T07:06:14.558760Z",
"latest_version_yanked": null,
"days_since_latest_publish": 8
}
]
},
"popularity": {
"forks": 22,
"stars": 96,
"watchers": 6,
"fork_history": {
"days": [
{
"date": "2023-04-14",
"count": 1
},
{
"date": "2023-05-02",
"count": 1
},
{
"date": "2023-06-06",
"count": 1
},
{
"date": "2023-08-23",
"count": 1
},
{
"date": "2023-09-14",
"count": 1
},
{
"date": "2023-09-19",
"count": 1
},
{
"date": "2024-02-22",
"count": 1
},
{
"date": "2024-03-08",
"count": 1
},
{
"date": "2024-04-10",
"count": 1
},
{
"date": "2024-09-03",
"count": 1
},
{
"date": "2024-09-06",
"count": 1
},
{
"date": "2024-12-04",
"count": 1
},
{
"date": "2025-02-04",
"count": 1
},
{
"date": "2025-03-31",
"count": 1
},
{
"date": "2025-04-14",
"count": 1
},
{
"date": "2025-04-21",
"count": 1
},
{
"date": "2025-08-15",
"count": 1
},
{
"date": "2025-10-06",
"count": 1
},
{
"date": "2025-11-04",
"count": 1
},
{
"date": "2025-12-16",
"count": 1
},
{
"date": "2026-04-07",
"count": 1
},
{
"date": "2026-05-16",
"count": 1
}
],
"complete": true,
"collected": 22,
"total_forks": 22
},
"star_history": {
"days": [
{
"date": "2022-10-25",
"count": 1
},
{
"date": "2022-10-26",
"count": 1
},
{
"date": "2022-11-02",
"count": 1
},
{
"date": "2022-11-03",
"count": 1
},
{
"date": "2022-11-14",
"count": 1
},
{
"date": "2023-02-03",
"count": 1
},
{
"date": "2023-02-10",
"count": 1
},
{
"date": "2023-03-08",
"count": 1
},
{
"date": "2023-03-14",
"count": 1
},
{
"date": "2023-04-05",
"count": 1
},
{
"date": "2023-04-26",
"count": 1
},
{
"date": "2023-05-25",
"count": 1
},
{
"date": "2023-06-20",
"count": 1
},
{
"date": "2023-08-02",
"count": 2
},
{
"date": "2023-08-03",
"count": 1
},
{
"date": "2023-08-07",
"count": 1
},
{
"date": "2023-09-19",
"count": 1
},
{
"date": "2023-09-21",
"count": 1
},
{
"date": "2023-09-24",
"count": 1
},
{
"date": "2023-09-25",
"count": 2
},
{
"date": "2023-10-17",
"count": 2
},
{
"date": "2023-12-11",
"count": 1
},
{
"date": "2023-12-12",
"count": 1
},
{
"date": "2023-12-13",
"count": 1
},
{
"date": "2024-01-03",
"count": 1
},
{
"date": "2024-01-04",
"count": 1
},
{
"date": "2024-02-12",
"count": 1
},
{
"date": "2024-02-22",
"count": 2
},
{
"date": "2024-02-27",
"count": 2
},
{
"date": "2024-03-13",
"count": 2
},
{
"date": "2024-03-30",
"count": 1
},
{
"date": "2024-04-10",
"count": 1
},
{
"date": "2024-04-17",
"count": 1
},
{
"date": "2024-05-26",
"count": 1
},
{
"date": "2024-07-11",
"count": 1
},
{
"date": "2024-07-25",
"count": 1
},
{
"date": "2024-08-07",
"count": 1
},
{
"date": "2024-08-17",
"count": 1
},
{
"date": "2024-09-04",
"count": 1
},
{
"date": "2024-10-04",
"count": 1
},
{
"date": "2024-10-17",
"count": 1
},
{
"date": "2024-11-02",
"count": 1
},
{
"date": "2024-11-09",
"count": 1
},
{
"date": "2024-12-04",
"count": 1
},
{
"date": "2024-12-11",
"count": 1
},
{
"date": "2024-12-25",
"count": 1
},
{
"date": "2025-01-07",
"count": 1
},
{
"date": "2025-02-04",
"count": 1
},
{
"date": "2025-03-26",
"count": 1
},
{
"date": "2025-03-27",
"count": 1
},
{
"date": "2025-04-21",
"count": 1
},
{
"date": "2025-04-24",
"count": 1
},
{
"date": "2025-05-27",
"count": 1
},
{
"date": "2025-06-16",
"count": 1
},
{
"date": "2025-07-01",
"count": 2
},
{
"date": "2025-07-30",
"count": 1
},
{
"date": "2025-08-06",
"count": 1
},
{
"date": "2025-08-07",
"count": 1
},
{
"date": "2025-08-11",
"count": 1
},
{
"date": "2025-08-12",
"count": 1
},
{
"date": "2025-08-19",
"count": 1
},
{
"date": "2025-08-24",
"count": 1
},
{
"date": "2025-09-03",
"count": 1
},
{
"date": "2025-09-07",
"count": 1
},
{
"date": "2025-09-10",
"count": 1
},
{
"date": "2025-10-20",
"count": 1
},
{
"date": "2025-10-22",
"count": 1
},
{
"date": "2025-10-29",
"count": 1
},
{
"date": "2025-11-03",
"count": 1
},
{
"date": "2025-11-14",
"count": 1
},
{
"date": "2025-11-22",
"count": 1
},
{
"date": "2025-11-25",
"count": 1
},
{
"date": "2026-01-06",
"count": 1
},
{
"date": "2026-01-13",
"count": 1
},
{
"date": "2026-01-18",
"count": 1
},
{
"date": "2026-01-21",
"count": 1
},
{
"date": "2026-01-27",
"count": 1
},
{
"date": "2026-01-30",
"count": 1
},
{
"date": "2026-02-11",
"count": 1
},
{
"date": "2026-02-27",
"count": 1
},
{
"date": "2026-03-05",
"count": 1
},
{
"date": "2026-03-15",
"count": 1
},
{
"date": "2026-04-03",
"count": 1
},
{
"date": "2026-04-15",
"count": 1
},
{
"date": "2026-05-16",
"count": 1
},
{
"date": "2026-06-18",
"count": 1
},
{
"date": "2026-07-08",
"count": 1
},
{
"date": "2026-07-09",
"count": 1
},
{
"date": "2026-07-21",
"count": 1
}
],
"complete": true,
"collected": 96,
"total_stars": 96
},
"open_issues_and_prs": 12
},
"ai_readiness": {
"has_nix": false,
"example_dirs": [
"notebooks"
],
"has_llms_txt": false,
"has_dockerfile": false,
"has_mcp_signal": false,
"bootstrap_files": [
"docs/Makefile"
],
"api_schema_files": [],
"has_devcontainer": false,
"typecheck_configs": [],
"toolchain_manifests": [],
"largest_source_bytes": 16779,
"source_files_sampled": 40,
"oversized_source_files": 0,
"agent_instruction_files": [],
"agent_instruction_max_bytes": null
},
"dependencies": {
"manifests": [
"pyproject.toml",
"setup.py"
],
"advisories": {
"error": "No resolved dependencies carried a version and a supported ecosystem",
"scope": "repository_graph",
"source": null,
"findings": [],
"collected": false,
"malicious": [],
"truncated": false,
"by_severity": {},
"advisory_count": 0,
"affected_count": 0,
"assessed_count": 0,
"malicious_count": 0,
"assessed_package": null,
"unassessed_count": 11,
"direct_affected_count": 0
},
"ecosystems": [
"pypi"
],
"dependencies": [
{
"name": "anndata",
"manifest": "pyproject.toml",
"ecosystem": "pypi",
"version_constraint": null
},
{
"name": "chex",
"manifest": "pyproject.toml",
"ecosystem": "pypi",
"version_constraint": null
},
{
"name": "jax",
"manifest": "pyproject.toml",
"ecosystem": "pypi",
"version_constraint": null
},
{
"name": "jaxlib",
"manifest": "pyproject.toml",
"ecosystem": "pypi",
"version_constraint": null
},
{
"name": "numpy",
"manifest": "pyproject.toml",
"ecosystem": "pypi",
"version_constraint": null
},
{
"name": "pandas",
"manifest": "pyproject.toml",
"ecosystem": "pypi",
"version_constraint": null
},
{
"name": "scipy",
"manifest": "pyproject.toml",
"ecosystem": "pypi",
"version_constraint": null
},
{
"name": "scikit-learn",
"manifest": "pyproject.toml",
"ecosystem": "pypi",
"version_constraint": null
},
{
"name": "scanpy",
"manifest": "pyproject.toml",
"ecosystem": "pypi",
"version_constraint": ">=1.9"
},
{
"name": "rich",
"manifest": "pyproject.toml",
"ecosystem": "pypi",
"version_constraint": null
},
{
"name": "pynndescent",
"manifest": "pyproject.toml",
"ecosystem": "pypi",
"version_constraint": null
},
{
"name": "igraph",
"manifest": "pyproject.toml",
"ecosystem": "pypi",
"version_constraint": ">0.9.0"
},
{
"name": "matplotlib",
"manifest": "pyproject.toml",
"ecosystem": "pypi",
"version_constraint": null
},
{
"name": "plottable",
"manifest": "pyproject.toml",
"ecosystem": "pypi",
"version_constraint": null
},
{
"name": "tqdm",
"manifest": "pyproject.toml",
"ecosystem": "pypi",
"version_constraint": null
},
{
"name": "umap-learn",
"manifest": "pyproject.toml",
"ecosystem": "pypi",
"version_constraint": ">=0.5.0"
}
],
"all_dependencies": {
"error": null,
"source": "github-sbom",
"packages": [
{
"name": "igraph",
"direct": true,
"version": null,
"ecosystem": "pypi"
},
{
"name": "scanpy",
"direct": true,
"version": null,
"ecosystem": "pypi"
},
{
"name": "umap-learn",
"direct": true,
"version": null,
"ecosystem": "pypi"
},
{
"name": "numba",
"direct": false,
"version": null,
"ecosystem": "pypi"
},
{
"name": "pybtex-docutils",
"direct": false,
"version": null,
"ecosystem": "pypi"
},
{
"name": "scanpydoc",
"direct": false,
"version": null,
"ecosystem": "pypi"
},
{
"name": "scib",
"direct": false,
"version": null,
"ecosystem": "pypi"
},
{
"name": "sphinx",
"direct": false,
"version": null,
"ecosystem": "pypi"
},
{
"name": "sphinx-book-theme",
"direct": false,
"version": null,
"ecosystem": "pypi"
},
{
"name": "sphinxcontrib-bibtex",
"direct": false,
"version": null,
"ecosystem": "pypi"
},
{
"name": "twine",
"direct": false,
"version": null,
"ecosystem": "pypi"
}
],
"collected": true,
"truncated": false,
"total_count": 11,
"direct_count": 3,
"indirect_count": 8
}
},
"maintainership": {
"issues": {
"open_prs": 5,
"merged_prs": 203,
"open_issues": 7,
"closed_ratio": 0.873,
"closed_issues": 48,
"closed_unmerged_prs": 16
},
"bus_factor": 1,
"bot_contributors": 2,
"top_contributors": [
{
"type": "User",
"login": "adamgayoso",
"commits": 95,
"avatar_url": "https://avatars.githubusercontent.com/u/10859440?v=4"
},
{
"type": "User",
"login": "martinkim0",
"commits": 20,
"avatar_url": "https://avatars.githubusercontent.com/u/46072231?v=4"
},
{
"type": "User",
"login": "ori-kron-wis",
"commits": 18,
"avatar_url": "https://avatars.githubusercontent.com/u/175299014?v=4"
},
{
"type": "User",
"login": "scverse-bot",
"commits": 2,
"avatar_url": "https://avatars.githubusercontent.com/u/108668866?v=4"
},
{
"type": "User",
"login": "grst",
"commits": 1,
"avatar_url": "https://avatars.githubusercontent.com/u/7051479?v=4"
},
{
"type": "User",
"login": "johnarevalo",
"commits": 1,
"avatar_url": "https://avatars.githubusercontent.com/u/1301626?v=4"
},
{
"type": "User",
"login": "justjhong",
"commits": 1,
"avatar_url": "https://avatars.githubusercontent.com/u/14086852?v=4"
},
{
"type": "User",
"login": "Zethson",
"commits": 1,
"avatar_url": "https://avatars.githubusercontent.com/u/21954664?v=4"
},
{
"type": "User",
"login": "prauten",
"commits": 1,
"avatar_url": "https://avatars.githubusercontent.com/u/38099261?v=4"
}
],
"contributors_sampled": 9,
"top_contributor_share": 0.679
},
"quality_signals": {
"has_ci": true,
"has_tests": true,
"ci_workflows": [
"build.yaml",
"release.yaml",
"test_linux.yaml",
"test_linux_cuda.yaml",
"test_linux_pre.yaml",
"test_macos.yaml",
"test_macos_m1.yaml",
"test_windows.yaml"
],
"has_docs_dir": true,
"linter_configs": [],
"has_editorconfig": true,
"has_linter_config": true,
"has_precommit_config": true
},
"security_signals": {
"lockfiles": [],
"scorecard": {
"checks": [
{
"name": "Binary-Artifacts",
"score": 10,
"reason": "no binaries found in the repo",
"documentation_url": "https://github.com/ossf/scorecard/blob/c395761df6afe1a69e476bc60a013a94bcbc153f/docs/checks.md#binary-artifacts"
},
{
"name": "Branch-Protection",
"score": 5,
"reason": "branch protection is not maximal on development and all release branches",
"documentation_url": "https://github.com/ossf/scorecard/blob/c395761df6afe1a69e476bc60a013a94bcbc153f/docs/checks.md#branch-protection"
},
{
"name": "CI-Tests",
"score": 10,
"reason": "24 out of 24 merged PRs checked by a CI test -- score normalized to 10",
"documentation_url": "https://github.com/ossf/scorecard/blob/c395761df6afe1a69e476bc60a013a94bcbc153f/docs/checks.md#ci-tests"
},
{
"name": "CII-Best-Practices",
"score": 0,
"reason": "no effort to earn an OpenSSF best practices badge detected",
"documentation_url": "https://github.com/ossf/scorecard/blob/c395761df6afe1a69e476bc60a013a94bcbc153f/docs/checks.md#cii-best-practices"
},
{
"name": "Code-Review",
"score": 0,
"reason": "Found 0/9 approved changesets -- score normalized to 0",
"documentation_url": "https://github.com/ossf/scorecard/blob/c395761df6afe1a69e476bc60a013a94bcbc153f/docs/checks.md#code-review"
},
{
"name": "Contributors",
"score": 10,
"reason": "project has 5 contributing companies or organizations",
"documentation_url": "https://github.com/ossf/scorecard/blob/c395761df6afe1a69e476bc60a013a94bcbc153f/docs/checks.md#contributors"
},
{
"name": "Dangerous-Workflow",
"score": 10,
"reason": "no dangerous workflow patterns detected",
"documentation_url": "https://github.com/ossf/scorecard/blob/c395761df6afe1a69e476bc60a013a94bcbc153f/docs/checks.md#dangerous-workflow"
},
{
"name": "Dependency-Update-Tool",
"score": 0,
"reason": "no update tool detected",
"documentation_url": "https://github.com/ossf/scorecard/blob/c395761df6afe1a69e476bc60a013a94bcbc153f/docs/checks.md#dependency-update-tool"
},
{
"name": "Fuzzing",
"score": 0,
"reason": "project is not fuzzed",
"documentation_url": "https://github.com/ossf/scorecard/blob/c395761df6afe1a69e476bc60a013a94bcbc153f/docs/checks.md#fuzzing"
},
{
"name": "License",
"score": 10,
"reason": "license file detected",
"documentation_url": "https://github.com/ossf/scorecard/blob/c395761df6afe1a69e476bc60a013a94bcbc153f/docs/checks.md#license"
},
{
"name": "Maintained",
"score": 10,
"reason": "15 commit(s) and 0 issue activity found in the last 90 days -- score normalized to 10",
"documentation_url": "https://github.com/ossf/scorecard/blob/c395761df6afe1a69e476bc60a013a94bcbc153f/docs/checks.md#maintained"
},
{
"name": "Packaging",
"score": 10,
"reason": "packaging workflow detected",
"documentation_url": "https://github.com/ossf/scorecard/blob/c395761df6afe1a69e476bc60a013a94bcbc153f/docs/checks.md#packaging"
},
{
"name": "Pinned-Dependencies",
"score": 0,
"reason": "dependency not pinned by hash detected -- score normalized to 0",
"documentation_url": "https://github.com/ossf/scorecard/blob/c395761df6afe1a69e476bc60a013a94bcbc153f/docs/checks.md#pinned-dependencies"
},
{
"name": "SAST",
"score": 0,
"reason": "SAST tool is not run on all commits -- score normalized to 0",
"documentation_url": "https://github.com/ossf/scorecard/blob/c395761df6afe1a69e476bc60a013a94bcbc153f/docs/checks.md#sast"
},
{
"name": "Security-Policy",
"score": 0,
"reason": "security policy file not detected",
"documentation_url": "https://github.com/ossf/scorecard/blob/c395761df6afe1a69e476bc60a013a94bcbc153f/docs/checks.md#security-policy"
},
{
"name": "Signed-Releases",
"score": null,
"reason": "no releases found",
"documentation_url": "https://github.com/ossf/scorecard/blob/c395761df6afe1a69e476bc60a013a94bcbc153f/docs/checks.md#signed-releases"
},
{
"name": "Token-Permissions",
"score": 0,
"reason": "detected GitHub workflow tokens with excessive permissions",
"documentation_url": "https://github.com/ossf/scorecard/blob/c395761df6afe1a69e476bc60a013a94bcbc153f/docs/checks.md#token-permissions"
},
{
"name": "Vulnerabilities",
"score": 10,
"reason": "0 existing vulnerabilities detected",
"documentation_url": "https://github.com/ossf/scorecard/blob/c395761df6afe1a69e476bc60a013a94bcbc153f/docs/checks.md#vulnerabilities"
}
],
"commit": "ad2afce6acfc09318f92c516e011e86b851413c3",
"ran_at": "2026-07-22T04:32:10Z",
"aggregate_score": 5,
"scorecard_version": "v5.5.0"
},
"has_codeql_workflow": false,
"has_security_policy": false,
"has_dependabot_config": false
},
"contribution_flow": {
"collected": true,
"ci_last_run_at": "2026-07-21T10:44:54Z",
"oldest_open_prs": [
{
"number": 83,
"created_at": "2023-02-16T17:58:42Z",
"last_comment_at": "2023-02-16T18:03:50Z",
"last_comment_author": "codecov"
},
{
"number": 259,
"created_at": "2026-03-10T16:23:03Z",
"last_comment_at": "2026-03-10T16:47:06Z",
"last_comment_author": "codecov"
},
{
"number": 267,
"created_at": "2026-05-16T21:36:30Z",
"last_comment_at": "2026-05-19T10:30:36Z",
"last_comment_author": "ori-kron-wis"
},
{
"number": 273,
"created_at": "2026-06-18T11:58:51Z",
"last_comment_at": "2026-06-23T08:24:02Z",
"last_comment_author": "codecov"
},
{
"number": 278,
"created_at": "2026-07-17T07:12:04Z",
"last_comment_at": null,
"last_comment_author": null
}
],
"last_merged_pr_at": "2026-07-21T06:42:32Z",
"ci_last_conclusion": null,
"oldest_open_issues": [
{
"number": 12,
"created_at": "2022-10-03T18:34:40Z",
"last_comment_at": null,
"last_comment_author": null
},
{
"number": 32,
"created_at": "2022-10-14T00:58:21Z",
"last_comment_at": null,
"last_comment_author": null
},
{
"number": 51,
"created_at": "2022-11-13T20:43:05Z",
"last_comment_at": null,
"last_comment_author": null
},
{
"number": 58,
"created_at": "2022-11-29T22:18:31Z",
"last_comment_at": "2025-10-08T09:32:27Z",
"last_comment_author": "jkobject"
},
{
"number": 62,
"created_at": "2022-12-09T20:09:00Z",
"last_comment_at": null,
"last_comment_author": null
},
{
"number": 100,
"created_at": "2023-08-10T13:42:43Z",
"last_comment_at": "2023-12-28T17:17:32Z",
"last_comment_author": "adamgayoso"
},
{
"number": 144,
"created_at": "2024-02-23T21:33:38Z",
"last_comment_at": null,
"last_comment_author": null
}
]
}
},
"config": {
"disabled_metrics": [],
"disabled_categories": [],
"disabled_components": {}
},
"source": {
"url": "https://github.com/YosefLab/scib-metrics",
"host": "github.com",
"name": "scib-metrics",
"owner": "YosefLab"
},
"metrics": {
"overall": {
"key": "overall",
"band": "good",
"name": "Overall health",
"note": null,
"notes": [],
"value": 73,
"inputs": {
"security": 50,
"vitality": 90,
"community": 58,
"governance": 68,
"engineering": 92
},
"components": []
},
"categories": [
{
"key": "vitality",
"band": "excellent",
"name": "Vitality",
"value": 90,
"weight": 0.22,
"metrics": [
{
"key": "development_activity",
"band": "excellent",
"name": "Development activity",
"note": null,
"notes": [],
"value": 88,
"inputs": {
"commits_last_year": 54,
"human_commit_share": 0.31,
"days_since_last_push": 0,
"active_weeks_last_year": 38
},
"components": [
{
"key": "push_recency",
"name": "Push recency",
"detail": "last push 0 days ago",
"points": 36,
"status": "met",
"details": [
{
"code": "push_recency",
"params": {
"days": 0
}
}
],
"max_points": 36
},
{
"key": "commit_cadence",
"name": "Commit cadence",
"detail": "38/52 weeks with commits",
"points": 26.3,
"status": "partial",
"details": [
{
"code": "commit_cadence_weeks",
"params": {
"weeks": 38
}
}
],
"max_points": 36
},
{
"key": "commit_volume",
"name": "Commit volume",
"detail": "54 commits in the last year",
"points": 15.6,
"status": "partial",
"details": [
{
"code": "commits_last_year",
"params": {
"count": 54
}
}
],
"max_points": 18
},
{
"key": "openssf_scorecard_maintained",
"name": "OpenSSF Scorecard: Maintained",
"detail": "15 commit(s) and 0 issue activity found in the last 90 days -- score normalized to 10",
"points": 10,
"status": "met",
"details": [],
"max_points": 10
}
]
},
{
"key": "release_discipline",
"band": "excellent",
"name": "Release discipline",
"note": "Excluded from scoring (no data or not applicable): OpenSSF Scorecard: Signed-Releases. Remaining weights renormalized.",
"notes": [
{
"code": "excluded_no_data",
"params": {
"components": [
"openssf_scorecard_signed_releases"
]
}
},
{
"code": "weights_renormalized",
"params": {}
}
],
"value": 92,
"inputs": {
"releases_count": 29,
"latest_release_tag": "v0.5.10",
"releases_from_tags": false,
"days_since_latest_release": 8,
"mean_days_between_releases": 96.7
},
"components": [
{
"key": "ships_releases",
"name": "Ships releases",
"detail": "29 releases published",
"points": 27,
"status": "met",
"details": [
{
"code": "releases_published",
"params": {
"count": 29
}
}
],
"max_points": 27
},
{
"key": "release_recency",
"name": "Release recency",
"detail": "latest release 8 days ago",
"points": 36,
"status": "met",
"details": [
{
"code": "release_recency",
"params": {
"days": 8
}
}
],
"max_points": 36
},
{
"key": "release_cadence",
"name": "Release cadence",
"detail": "a release every ~96.7 days",
"points": 19.8,
"status": "partial",
"details": [
{
"code": "release_cadence",
"params": {
"gap": 96.7
}
}
],
"max_points": 27
},
{
"key": "openssf_scorecard_signed_releases",
"name": "OpenSSF Scorecard: Signed-Releases",
"detail": "no releases found",
"points": 0,
"status": "excluded",
"details": [
{
"code": "no_data",
"params": {}
}
],
"max_points": 10
}
]
},
{
"key": "abandonment",
"band": "excellent",
"name": "Abandonment",
"note": null,
"notes": [],
"value": 100,
"inputs": {
"cap": null,
"state": "maintained",
"guards": [],
"signals": [],
"red_flag": false,
"multiplier_pct": 100,
"declared_reason": null,
"unverified_reason": null,
"unanswered_open_prs": null,
"unanswered_open_issues": null,
"days_since_last_merged_pr": null,
"days_since_last_human_commit": 8,
"days_since_last_human_commit_is_floor": false
},
"components": [
{
"key": "project_is_still_maintained",
"name": "Project is still maintained",
"detail": "last human commit 8 days ago",
"points": 100,
"status": "met",
"details": [
{
"code": "abandonment_maintained",
"params": {
"days": 8
}
}
],
"max_points": 100
}
]
}
],
"description": "Is the project alive — is code being written and are releases shipping?"
},
{
"key": "community",
"band": "moderate",
"name": "Community & Adoption",
"value": 58,
"weight": 0.18,
"metrics": [
{
"key": "popularity",
"band": "at_risk",
"name": "Popularity & adoption",
"note": null,
"notes": [],
"value": 47,
"inputs": {
"forks": 22,
"stars": 96,
"watchers": 6,
"growth_state": "unverified",
"growth_factor_pct": 100,
"growth_unverified_reason": "below_threshold"
},
"components": [
{
"key": "stars",
"name": "Stars",
"detail": "96 stars",
"points": 32.1,
"status": "partial",
"details": [
{
"code": "stars",
"params": {
"count": 96
}
}
],
"max_points": 60
},
{
"key": "forks",
"name": "Forks",
"detail": "22 forks",
"points": 11,
"status": "partial",
"details": [
{
"code": "forks",
"params": {
"count": 22
}
}
],
"max_points": 25
},
{
"key": "watchers",
"name": "Watchers",
"detail": "6 watchers",
"points": 3.9,
"status": "partial",
"details": [
{
"code": "watchers",
"params": {
"count": 6
}
}
],
"max_points": 15
}
]
},
{
"key": "community_health",
"band": "good",
"name": "Community health",
"note": null,
"notes": [],
"value": 70,
"inputs": {
"has_readme": true,
"has_license": true,
"has_contributing": true,
"has_issue_template": false,
"has_code_of_conduct": false,
"has_pull_request_template": false
},
"components": [
{
"key": "readme",
"name": "README",
"detail": null,
"points": 22.5,
"status": "met",
"details": [],
"max_points": 22.5
},
{
"key": "license",
"name": "License",
"detail": "recognized license (BSD-3-Clause)",
"points": 22.5,
"status": "met",
"details": [
{
"code": "license_standard",
"params": {}
},
{
"code": "license_spdx",
"params": {
"spdx": "BSD-3-Clause"
}
}
],
"max_points": 22.5
},
{
"key": "contributing_guide",
"name": "CONTRIBUTING guide",
"detail": null,
"points": 18,
"status": "met",
"details": [],
"max_points": 18
},
{
"key": "code_of_conduct",
"name": "Code of conduct",
"detail": null,
"points": 0,
"status": "missed",
"details": [],
"max_points": 13.5
},
{
"key": "issue_template",
"name": "Issue template",
"detail": null,
"points": 0,
"status": "missed",
"details": [],
"max_points": 7.2
},
{
"key": "pr_template",
"name": "PR template",
"detail": null,
"points": 0,
"status": "missed",
"details": [],
"max_points": 6.3
}
]
}
],
"description": "Does the project have users, downloads, attention, and a welcoming setup for contributors?"
},
{
"key": "governance",
"band": "moderate",
"name": "Sustainability & Governance",
"value": 68,
"weight": 0.24,
"metrics": [
{
"key": "maintainer_resilience",
"band": "at_risk",
"name": "Maintainer resilience (bus factor)",
"note": null,
"notes": [],
"value": 38,
"inputs": {
"bus_factor": 1,
"contributors_sampled": 9,
"top_contributor_share": 0.679
},
"components": [
{
"key": "bus_factor",
"name": "Bus factor",
"detail": "1 contributor(s) cover half of all commits",
"points": 9,
"status": "partial",
"details": [
{
"code": "bus_factor",
"params": {
"count": 1
}
}
],
"max_points": 54
},
{
"key": "commit_distribution",
"name": "Commit distribution",
"detail": "top contributor authored 68% of commits",
"points": 7.2,
"status": "partial",
"details": [
{
"code": "top_contributor_share",
"params": {
"share": 68
}
}
],
"max_points": 22.5
},
{
"key": "contributor_breadth",
"name": "Contributor breadth",
"detail": "9 contributors",
"points": 12.2,
"status": "partial",
"details": [
{
"code": "contributors_sampled",
"params": {
"count": 9
}
}
],
"max_points": 13.5
},
{
"key": "openssf_scorecard_contributors",
"name": "OpenSSF Scorecard: Contributors",
"detail": "project has 5 contributing companies or organizations",
"points": 10,
"status": "met",
"details": [],
"max_points": 10
}
]
},
{
"key": "responsiveness",
"band": "good",
"name": "Issue & PR responsiveness",
"note": null,
"notes": [],
"value": 76,
"inputs": {
"merged_prs": 203,
"open_issues": 7,
"closed_issues": 48,
"issue_closed_ratio": 0.873,
"closed_unmerged_prs": 16
},
"components": [
{
"key": "issue_resolution",
"name": "Issue resolution",
"detail": "87% of issues closed",
"points": 40.8,
"status": "partial",
"details": [
{
"code": "issues_closed_share",
"params": {
"share": 87
}
}
],
"max_points": 46.75
},
{
"key": "pr_acceptance",
"name": "PR acceptance",
"detail": "203/219 decided PRs merged",
"points": 35.5,
"status": "partial",
"details": [
{
"code": "decided_prs_merged",
"params": {
"merged": 203,
"decided": 219
}
}
],
"max_points": 38.25
},
{
"key": "openssf_scorecard_code_review",
"name": "OpenSSF Scorecard: Code-Review",
"detail": "Found 0/9 approved changesets -- score normalized to 0",
"points": 0,
"status": "missed",
"details": [],
"max_points": 15
}
]
},
{
"key": "stewardship",
"band": "good",
"name": "Ownership & stewardship",
"note": null,
"notes": [],
"value": 70,
"inputs": {
"followers": 138,
"owner_type": "Organization",
"is_verified": null,
"owner_login": "YosefLab",
"public_repos": 73,
"account_age_days": 3991
},
"components": [
{
"key": "ownership_backing",
"name": "Ownership backing",
"detail": "organization-owned",
"points": 30,
"status": "met",
"details": [
{
"code": "owner_organization",
"params": {}
}
],
"max_points": 30
},
{
"key": "verified_domain",
"name": "Verified domain",
"detail": null,
"points": 0,
"status": "missed",
"details": [],
"max_points": 20
},
{
"key": "owner_reach",
"name": "Owner reach",
"detail": "138 followers of YosefLab",
"points": 15.4,
"status": "partial",
"details": [
{
"code": "owner_followers",
"params": {
"count": 138,
"login": "YosefLab"
}
}
],
"max_points": 25
},
{
"key": "track_record",
"name": "Track record",
"detail": "73 public repos, account ~10 yr old",
"points": 25,
"status": "met",
"details": [
{
"code": "public_repos",
"params": {
"count": 73
}
},
{
"code": "account_age_years",
"params": {
"years": 10
}
}
],
"max_points": 25
}
]
},
{
"key": "package_maintenance",
"band": "excellent",
"name": "Package maintenance",
"note": null,
"notes": [],
"value": 100,
"inputs": {
"packages": [
"scib-metrics"
],
"ecosystems": "pypi",
"any_deprecated": false,
"min_days_since_publish": 8
},
"components": [
{
"key": "published_resolvable",
"name": "Published & resolvable",
"detail": "1 package(s) on pypi",
"points": 25,
"status": "met",
"details": [
{
"code": "packages_published",
"params": {
"count": 1,
"ecosystems": "pypi"
}
}
],
"max_points": 25
},
{
"key": "publish_recency",
"name": "Publish recency",
"detail": "latest publish 8 days ago",
"points": 35,
"status": "met",
"details": [
{
"code": "publish_recency",
"params": {
"days": 8
}
}
],
"max_points": 35
},
{
"key": "version_history",
"name": "Version history",
"detail": "28 published versions",
"points": 20,
"status": "met",
"details": [
{
"code": "published_versions",
"params": {
"count": 28
}
}
],
"max_points": 20
},
{
"key": "not_deprecated",
"name": "Not deprecated",
"detail": "active, not deprecated or yanked",
"points": 20,
"status": "met",
"details": [
{
"code": "package_not_deprecated",
"params": {}
}
],
"max_points": 20
}
]
}
],
"description": "Will the project survive its people — bus factor, responsiveness, who backs it, and package upkeep?"
},
{
"key": "engineering",
"band": "excellent",
"name": "Engineering Quality",
"value": 92,
"weight": 0.2,
"metrics": [
{
"key": "engineering_practices",
"band": "excellent",
"name": "Engineering practices",
"note": null,
"notes": [],
"value": 100,
"inputs": {
"has_ci": true,
"has_tests": true,
"has_editorconfig": true,
"has_linter_config": true,
"has_precommit_config": true
},
"components": [
{
"key": "ci_workflows",
"name": "CI workflows",
"detail": "8 workflow(s)",
"points": 24,
"status": "met",
"details": [
{
"code": "ci_workflows",
"params": {
"count": 8
}
}
],
"max_points": 24
},
{
"key": "tests_present",
"name": "Tests present",
"detail": null,
"points": 24,
"status": "met",
"details": [],
"max_points": 24
},
{
"key": "linter_config",
"name": "Linter config",
"detail": null,
"points": 16,
"status": "met",
"details": [],
"max_points": 16
},
{
"key": "pre_commit_hooks",
"name": "Pre-commit hooks",
"detail": null,
"points": 9.6,
"status": "met",
"details": [],
"max_points": 9.6
},
{
"key": "editorconfig",
"name": ".editorconfig",
"detail": null,
"points": 6.4,
"status": "met",
"details": [],
"max_points": 6.4
},
{
"key": "openssf_scorecard_ci_tests",
"name": "OpenSSF Scorecard: CI-Tests",
"detail": "24 out of 24 merged PRs checked by a CI test -- score normalized to 10",
"points": 20,
"status": "met",
"details": [],
"max_points": 20
}
]
},
{
"key": "documentation",
"band": "good",
"name": "Documentation",
"note": null,
"notes": [],
"value": 80,
"inputs": {
"topics": [],
"has_wiki": false,
"homepage": "https://scib-metrics.readthedocs.io/",
"has_readme": true,
"has_docs_dir": true,
"has_description": true
},
"components": [
{
"key": "readme",
"name": "README",
"detail": null,
"points": 30,
"status": "met",
"details": [],
"max_points": 30
},
{
"key": "documentation_directory",
"name": "Documentation directory",
"detail": null,
"points": 25,
"status": "met",
"details": [],
"max_points": 25
},
{
"key": "documentation_homepage_site",
"name": "Documentation / homepage site",
"detail": "https://scib-metrics.readthedocs.io/",
"points": 15,
"status": "met",
"details": [],
"max_points": 15
},
{
"key": "repository_description",
"name": "Repository description",
"detail": null,
"points": 10,
"status": "met",
"details": [],
"max_points": 10
},
{
"key": "topics",
"name": "Topics",
"detail": null,
"points": 0,
"status": "missed",
"details": [],
"max_points": 10
},
{
"key": "wiki",
"name": "Wiki",
"detail": null,
"points": 0,
"status": "missed",
"details": [],
"max_points": 10
}
]
}
],
"description": "Are baseline engineering and documentation practices in place?"
},
{
"key": "security",
"band": "moderate",
"name": "Security",
"value": 50,
"weight": 0.16,
"metrics": [
{
"key": "security_posture",
"band": "moderate",
"name": "Security posture",
"note": "Excluded from scoring (no data or not applicable): Signed-Releases. Remaining weights renormalized.",
"notes": [
{
"code": "excluded_no_data",
"params": {
"components": [
"signed_releases"
]
}
},
{
"code": "weights_renormalized",
"params": {}
}
],
"value": 50,
"inputs": {
"source": "openssf_scorecard",
"checks_evaluated": 17,
"scorecard_version": "v5.5.0",
"checks_inconclusive": 1,
"scorecard_aggregate": 5
},
"components": [
{
"key": "binary_artifacts",
"name": "Binary-Artifacts",
"detail": "no binaries found in the repo",
"points": 7.5,
"status": "met",
"details": [],
"max_points": 7.5
},
{
"key": "branch_protection",
"name": "Branch-Protection",
"detail": "branch protection is not maximal on development and all release branches",
"points": 3.8,
"status": "partial",
"details": [],
"max_points": 7.5
},
{
"key": "ci_tests",
"name": "CI-Tests",
"detail": "24 out of 24 merged PRs checked by a CI test -- score normalized to 10",
"points": 2.5,
"status": "met",
"details": [],
"max_points": 2.5
},
{
"key": "cii_best_practices",
"name": "CII-Best-Practices",
"detail": "no effort to earn an OpenSSF best practices badge detected",
"points": 0,
"status": "missed",
"details": [],
"max_points": 2.5
},
{
"key": "code_review",
"name": "Code-Review",
"detail": "Found 0/9 approved changesets -- score normalized to 0",
"points": 0,
"status": "missed",
"details": [],
"max_points": 7.5
},
{
"key": "contributors",
"name": "Contributors",
"detail": "project has 5 contributing companies or organizations",
"points": 2.5,
"status": "met",
"details": [],
"max_points": 2.5
},
{
"key": "dangerous_workflow",
"name": "Dangerous-Workflow",
"detail": "no dangerous workflow patterns detected",
"points": 10,
"status": "met",
"details": [],
"max_points": 10
},
{
"key": "dependency_update_tool",
"name": "Dependency-Update-Tool",
"detail": "no update tool detected",
"points": 0,
"status": "missed",
"details": [],
"max_points": 7.5
},
{
"key": "fuzzing",
"name": "Fuzzing",
"detail": "project is not fuzzed",
"points": 0,
"status": "missed",
"details": [],
"max_points": 5
},
{
"key": "license",
"name": "License",
"detail": "license file detected",
"points": 2.5,
"status": "met",
"details": [],
"max_points": 2.5
},
{
"key": "maintained",
"name": "Maintained",
"detail": "15 commit(s) and 0 issue activity found in the last 90 days -- score normalized to 10",
"points": 7.5,
"status": "met",
"details": [],
"max_points": 7.5
},
{
"key": "packaging",
"name": "Packaging",
"detail": "packaging workflow detected",
"points": 5,
"status": "met",
"details": [],
"max_points": 5
},
{
"key": "pinned_dependencies",
"name": "Pinned-Dependencies",
"detail": "dependency not pinned by hash detected -- score normalized to 0",
"points": 0,
"status": "missed",
"details": [],
"max_points": 5
},
{
"key": "sast",
"name": "SAST",
"detail": "SAST tool is not run on all commits -- score normalized to 0",
"points": 0,
"status": "missed",
"details": [],
"max_points": 5
},
{
"key": "security_policy",
"name": "Security-Policy",
"detail": "security policy file not detected",
"points": 0,
"status": "missed",
"details": [],
"max_points": 5
},
{
"key": "signed_releases",
"name": "Signed-Releases",
"detail": "no releases found",
"points": 0,
"status": "excluded",
"details": [
{
"code": "no_data",
"params": {}
}
],
"max_points": 7.5
},
{
"key": "token_permissions",
"name": "Token-Permissions",
"detail": "detected GitHub workflow tokens with excessive permissions",
"points": 0,
"status": "missed",
"details": [],
"max_points": 7.5
},
{
"key": "vulnerabilities",
"name": "Vulnerabilities",
"detail": "0 existing vulnerabilities detected",
"points": 7.5,
"status": "met",
"details": [],
"max_points": 7.5
}
]
},
{
"key": "high_risk_jurisdiction_exposure",
"band": "excellent",
"name": "High-Risk Jurisdiction Exposure",
"note": "Only high-confidence self-published location evidence affects this multiplier. Ambiguous matches are review-only; country evidence is not proof of nationality, citizenship, legal registration, malicious intent, or sanctions status.",
"notes": [
{
"code": "jurisdiction_evidence_limits",
"params": {}
}
],
"value": 100,
"inputs": {
"meaning": "self-published location evidence; not nationality or citizenship",
"red_flag": false,
"exposures": [],
"policy_countries": [
"Russia",
"Iran",
"North Korea"
],
"review_only_matches": 0,
"assessed_self_published_locations": 15
},
"components": [
{
"key": "policy_exposure_multiplier",
"name": "Policy exposure multiplier",
"detail": "no confirmed policy-scope location match",
"points": 100,
"status": "met",
"details": [
{
"code": "jurisdiction_no_match",
"params": {}
}
],
"max_points": 100
}
]
}
],
"description": "Are visible security and supply-chain practices strong, with no malicious dependency and no unresolved high-risk jurisdiction exposure?"
},
{
"key": "ai_readiness",
"band": "at_risk",
"name": "AI Readiness",
"value": 47,
"weight": 0,
"metrics": [
{
"key": "ai_agent_context",
"band": "at_risk",
"name": "Agent context & guidance",
"note": null,
"notes": [],
"value": 40,
"inputs": {
"has_llms_txt": false,
"legible_history_share": 0.742,
"agent_instruction_files": [],
"agent_instruction_max_bytes": null
},
"components": [
{
"key": "agent_instructions",
"name": "Agent instructions",
"detail": "no CLAUDE.md / AGENTS.md / editor rules",
"points": 0,
"status": "missed",
"details": [
{
"code": "no_agent_instructions",
"params": {}
}
],
"max_points": 45
},
{
"key": "machine_readable_docs_llms_txt",
"name": "Machine-readable docs (llms.txt)",
"detail": null,
"points": 0,
"status": "missed",
"details": [],
"max_points": 15
},
{
"key": "legible_commit_history",
"name": "Legible commit history",
"detail": "23 of 31 human commits state their intent (structured subject or explanatory body)",
"points": 39.6,
"status": "partial",
"details": [
{
"code": "legible_history",
"params": {
"legible": 23,
"sampled": 31
}
}
],
"max_points": 40
}
]
},
{
"key": "ai_verify_loop",
"band": "moderate",
"name": "Verify loop (build / test / typecheck)",
"note": null,
"notes": [],
"value": 51,
"inputs": {
"has_nix": false,
"has_tests": true,
"lockfiles": [],
"has_dockerfile": false,
"typed_language": false,
"bootstrap_files": [
"docs/Makefile"
],
"has_devcontainer": false,
"has_linter_config": true,
"typecheck_configs": [],
"agent_commit_share": 0,
"toolchain_manifests": [],
"dependency_bot_commit_share": 0
},
"components": [
{
"key": "one_command_bootstrap",
"name": "One-command bootstrap",
"detail": "docs/Makefile",
"points": 18,
"status": "met",
"details": [
{
"code": "file_list",
"params": {
"files": "docs/Makefile"
}
}
],
"max_points": 18
},
{
"key": "automated_tests",
"name": "Automated tests",
"detail": null,
"points": 22,
"status": "met",
"details": [],
"max_points": 22
},
{
"key": "lint_format_config",
"name": "Lint / format config",
"detail": null,
"points": 11,
"status": "met",
"details": [],
"max_points": 11
},
{
"key": "static_type_checking",
"name": "Static type checking",
"detail": null,
"points": 0,
"status": "missed",
"details": [],
"max_points": 11
},
{
"key": "reproducible_environment",
"name": "Reproducible environment",
"detail": null,
"points": 0,
"status": "missed",
"details": [],
"max_points": 10
},
{
"key": "demonstrated_agent_practice",
"name": "Demonstrated agent practice",
"detail": "no agent-authored commits among the last 100",
"points": 0,
"status": "missed",
"details": [
{
"code": "no_agent_authored_commits",
"params": {
"sampled": 100
}
}
],
"max_points": 10
},
{
"key": "automated_maintenance",
"name": "Automated maintenance",
"detail": "no automated dependency updates observed",
"points": 0,
"status": "missed",
"details": [
{
"code": "no_dependency_automation",
"params": {}
}
],
"max_points": 8
},
{
"key": "openssf_scorecard_pinned_dependencies",
"name": "OpenSSF Scorecard: Pinned-Dependencies",
"detail": "dependency not pinned by hash detected -- score normalized to 0",
"points": 0,
"status": "missed",
"details": [],
"max_points": 10
}
]
},
{
"key": "ai_code_legibility",
"band": "moderate",
"name": "Code legibility for models",
"note": null,
"notes": [],
"value": 55,
"inputs": {
"primary_language": "Python",
"largest_source_bytes": 16779,
"source_files_sampled": 40,
"oversized_source_files": 0
},
"components": [
{
"key": "type_checkable_code",
"name": "Type-checkable code",
"detail": "Python without a type-check config",
"points": 0,
"status": "missed",
"details": [
{
"code": "no_typecheck_config_language",
"params": {
"language": "Python"
}
}
],
"max_points": 45
},
{
"key": "manageable_file_sizes",
"name": "Manageable file sizes",
"detail": "0/40 source files over 60KB",
"points": 55,
"status": "met",
"details": [
{
"code": "oversized_source_files",
"params": {
"kb": 60,
"sampled": 40,
"oversized": 0
}
}
],
"max_points": 55
}
]
},
{
"key": "ai_interfaces",
"band": "at_risk",
"name": "Machine-readable interfaces",
"note": null,
"notes": [],
"value": 40,
"inputs": {
"example_dirs": [
"notebooks"
],
"has_mcp_signal": false,
"api_schema_files": []
},
"components": [
{
"key": "api_schema_openapi_graphql_proto",
"name": "API schema (OpenAPI/GraphQL/proto)",
"detail": null,
"points": 0,
"status": "missed",
"details": [],
"max_points": 40
},
{
"key": "mcp_server",
"name": "MCP server",
"detail": null,
"points": 0,
"status": "missed",
"details": [],
"max_points": 20
},
{
"key": "runnable_examples",
"name": "Runnable examples",
"detail": "notebooks",
"points": 40,
"status": "met",
"details": [
{
"code": "file_list",
"params": {
"files": "notebooks"
}
}
],
"max_points": 40
}
]
}
],
"description": "How well is the repo equipped to be developed and maintained with AI coding agents? An independent, experimental badge — weight 0.0, so it is surfaced on its own and does not affect the overall health score."
}
],
"metrics_version": "1.13.0"
},
"warnings": [
"deps.dev does not index pypi:scib-metrics@0.5.10; advisories assessed against the repository dependency graph instead",
"No resolved dependencies carried a version and a supported ecosystem"
],
"report_type": "repository",
"generated_at": "2026-07-22T04:32:28.724905Z",
"schema_version": "0.26.0",
"badge_url": "https://raw.githubusercontent.com/inspect-software/badges/main/v1/y/YosefLab/scib-metrics.svg",
"full_name": "YosefLab/scib-metrics",
"license_state": "standard",
"license_spdx": "BSD-3-Clause"
}Bewertungen sind Signale, keine Garantien. Sie spiegeln öffentlich sichtbare Praxis auf GitHub wider — kein Code-Audit und keine Sicherheitsgarantie.
Fehlende Daten werden ausgeschlossen und die Gewichte neu normiert, nie als null bewertet. Die Methodik ist versioniert und offen: Metriken v1.13.0, Schema v0.26.0 — vollständige Methodik · Metriken-Wiki.
Wie ein einzelnes Ergebnis im Gesamtregister steht: aggregierte Statistiken — PyPI.