#genomics

MISO: An open-source LIMS for NGS sequencing centres

Official git repository for Biopython (originally converted from CVS)

Oxford Nanopore's Basecaller

Turn any AI agent into an AI Scientist. The #1 Agent Skills library for science, used by 190,000+ scientists worldwide. 165 ready-to-use validated skills plus 100+ scientific databases covering biology, chemistry, medicine, and drug discovery. Compatible with Cursor, Claude Code, Codex, Pi, Antigravity, and the open Agent Skills standard.

A structural variation pipeline for short-read sequencing

viral-ngs: command line tools and wrappers for processing raw viral genomic data

BioMCP: Biomedical Model Context Protocol

Read Tabix-indexed files, either with .tbi or .csi indexes, in node or the browser

Cloud-native genomic dataframes and batch computing

Parser for bigwig and bigbed files

VCF (variant call format) parser

The tool for in silico serotyping

JAMMA (Highly-Accelerated Multi-method Mixed-model Association) -- a fast and modern Python and C reimplementation of GEMMA for large-scale GWAS.

GORpipe is a tool based on a genomic ordered relational architecture and allows analysis of large sets of genomic and phenotypic tabular data using declarative query language, in a parallel execution engine.

Read FASTA files indexed with .fai indexes. Also supports BGZIP+.gzi

Embeddable genomic visualization component based on the Integrative Genomics Viewer