Snakemake workflow implementation of DivRef resource generation

A pure rust reimplementation of rapid-gzip by Maximilian Knespel and Holger Brunst

Code & Additional Materials from the T2T Marmoset Project

Run many Claude Code sessions across your projects, each in its own tmux session — then list them, see which are done vs. still working, and jump to one from a single popup.

A scientific plotting library in Rust

Mapping sequencing data to De Bruijn graphs, fast

Rust bindings to minimap2 library

Terminal-based plasmid map viewer, sequence editor, and cloning/mutagenesis workbench in pure Python

Code for Command-Line Rust (O'Reilly, 2024, ISBN 9781098109417)

A shell language with cleaner syntax, automatic redirection, and proper datatypes

🐟 🔬🦀 alevin-fry is an efficient and flexible tool for processing single-cell sequencing data, currently focused on single-cell transcriptomics and feature barcoding.

Processing and analysis pipelines for the manuscript titled "Long-term isolation and archaic introgression shape functional genetic variation in Near Oceania"

Color palette package in R inspired by works at the Metropolitan Museum of Art in New York

Bayesian reconstruction of ancient DNA fragments

Successor of bwa-mem for short-read alignment

ggideogram is a ggplot2 extension package for drawing chromosome diagrams

An extensible and performant aligner and read mapper

An all-singing, all-dancing, bash template for cool CLI scripts (a bash cookiecutter).

Just a collection of (often poor) scripts to do various bits of bioinformatics stuff I find myself needing to do.

Statistics for Adaptive Introgression

Fast calculation of Patterson's D (ABBA-BABA) and the f4-ratio statistics across many populations/species

SingleR: Single-cell RNA-seq cell types Recognition (legacy version)

TOGA2: A faster, more versatile successor of Tool to infer Orthologs from Genome Alignments

R package for modeling single cell UMI expression data using regularized negative binomial regression