q - Run SQL directly on delimited files and multi-file sqlite databases

Official git repository for Biopython (originally converted from CVS)

Single-cell analysis in Python. Scales to >1M cells.

python module to plot beautiful and highly customizable genome browser tracks

Tools to process and analyze deep sequencing data.

A Python implementation of the DESeq2 pipeline for bulk RNA-seq DEA.

Annotated data.

RNA velocity estimation in Python

Episcanpy: Epigenomics Single Cell Analysis in Python

Convert between AnnData and SingleCellExperiment

Geometry-preserving random sampling

Cellxgene Gateway allows you to use the Cellxgene Server provided by the Chan Zuckerberg Institute (https://github.com/chanzuckerberg/cellxgene) with multiple datasets.

Provides easy read/write access to genomic tracks

Rna-seq pipeline, From FASTQ to differential expression analysis...

Log command line events to a graph database :)

EpiExplorer is a web tool that allows you to use large reference epigenome datasets for your own analysis without complex scripting or laborous preprocessing.