an efficient awk-like language

Convert MALLET binary InstanceList files to human-readable JSON format

A high-performance, zero-overhead, extensible Python compiler with built-in NumPy support

iRODS native interface in Go

Rust Backend for PyRanges Operations. More featureful and much faster replacement for the NCLS library

The Secure CommsOS™ for mission-critical operations

Per-base per-nucleotide depth analysis

This library provides HTSlib bindings and a high level Rust API for reading and writing BAM files.

The CSV magician

Fast multi-threaded DataFrame library in Rust and Python

Performance-critical tools to manipulate, analyze, and process genomic interval data. Primarily focused on building tools for geniml - our genomic machine learning python package.

The D4 Quantitative Data Format

Demultiplexing pooled scRNA-seq data with or without genotype reference

A variety of tools for my own use

Work with bioinformatic files using Arrow, Polars, and/or DuckDB

Exon is an OLAP query engine specifically for biology and life science applications.

Bioinformatics I/O libraries in Rust

Read specialized NGS formats as data frames in R, Python, and more.

Portable file system cache diagnostics and control

Topic modeling with latent Dirichlet allocation using Gibbs sampling

Build and publish crates with pyo3, rust-cpython and cffi bindings as well as rust binaries as python packages

A method for analyzing scATAC-seq experiments.

fast, memory-efficient, pythonic (and command-line) access to fasta sequence files

Cross-platform Rust rewrite of the GNU coreutils

This is the official development repository for BCFtools. See installation instructions and other documentation here http://samtools.github.io/bcftools/howtos/install.html

Efficient genotyping bi-allelic SNPs on single cells

bioinformatics toolkit in rust