kaizhang

SnapATAC2

Single-cell epigenomics analysis tools

SciFlow

Scientific workflow management

anndata-rs

clustering

fast clustering algorithms

bioinformatics-toolkit

A collection of bioinformatics algorithms

haskell-igraph

Haskell bindings to igraph library.

Taiji

This project has been moved to:

single-cell-benchmark

HsHTSLib

matrices

Haskell matrix library

LDSC

DBPnet

Inferring cooperation of DNA binding proteins in 3D genome.

drmaa

A very simple Haskell bindings to drmaa library.

hpc-cluster

Automate the process of building HPC clusters.

anndata

Annotated data.

bavaria

Batch-adversarial variational auto-encoder (BAVARIA) for simultaneous dimensionality reduction and integration of single-cell ATAC-seq datasets

bbi

Tools for working with Big Binary Indexed files (bigBed/bigWig)

bed-utils

ChromVAR

Haskell implementation of the chromVAR algorithm with constant memory usage.

epigenomics-analysis

hdf5-rust

HDF5 for Rust

kaizhang.github.io

matrix-sized

Generic matrix with statically known size and bindings to C++ linear algebra libraries (Eigen, Spectra).

minimap2

A versatile pairwise aligner for genomic and spliced nucleotide sequences

pandoc-crossref

Pandoc filter for cross-references

RFECS

http://journals.plos.org/ploscompbiol/article?id=10.1371/journal.pcbi.1002968

rust-bio

This library provides implementations of many algorithms and data structures that are useful for bioinformatics. All provided implementations are rigorously tested via continuous integration.

rust-n5

Rust implementation of the N5 "Not HDF5" tensor file system format

scib-pipeline

Snakemake pipeline that works with the scIB package to benchmark data integration methods.

stackage

"Stable Hackage": vetted consistent packages from Hackage