The AI developer platform. Use Weights & Biases to train and fine-tune models, and manage models from experimentation to production.

machine learning for genomic variants

The Julia Programming Language

A curated and summarized list of bioinformatics bench-marking papers and resources.

Accelerated BLAST compatible local sequence aligner.

This is the development home of the workflow management system Snakemake. For general information, see

An open source platform for managing and analyzing biomedical big data

Easy to maintain open source documentation websites.

web-based analysis tool for rare disease genomics

Single-cell analysis in Python. Scales to >100M cells.

A toolkit for single-cell immune profiling

Bioconda is a distribution of bioinformatics software realized as a channel for the versatile package manager Conda.

Deep probabilistic analysis of single-cell and spatial omics data

Table of software for the analysis of single-cell RNA-seq data.

Toolkit for highly memory efficient analysis of single-cell RNA-Seq, scATAC-Seq and CITE-Seq data. Analyze atlas scale datasets with millions of cells on laptop.

A curated list of awesome ggplot2 tutorials, packages etc.

Apptainer: Application containers for Linux

An overview of algorithms for estimating pseudotime in single-cell RNA-seq data

An interactive explorer for single-cell transcriptomics data

A flexible pipeline for complete analysis of bacterial genomes

Accelerated, Python-only, single-cell integration benchmarking metrics

Introduction to the Command Line for Genomics

Spatial Single Cell Analysis in Python

R package for integrating and analyzing multiple single-cell datasets

🧬 gget enables efficient querying of genomic reference databases

Easy single cell analysis platform for enrichment

Official git repository for Biopython (originally converted from CVS)

Gene set scoring for single-cell data

Python pipelines for analysis of adipocyte scRNA-seq data