A genotype-likelihood method for contaminated low-coverage archaic human genetic data

Comparing read alignment

An extensible and performant aligner and read mapper

An Infinitely Large Napkin

syncmer graphs, and perhaps other sorts of sequence graphs

A scientific plotting library in Rust

Repository to host tool-specific module files for the Nextflow DSL2 community!

A small and fast FM-Index for Rust

fork for PRs

FM-index with lookup table

Flight rules for git

A realistic-ish aDNA simulator

A fully reproducible and state-of-the-art ancient DNA analysis pipeline

Rust implementation of the wavefront alignment algorithm

A pipeline for the analysis of sedimentary ancient mtDNA.

Catalogue of pairwise alignment algorithms and benchmarks

Yet another redundant workflow engine

A Gaggia Classic control project using microcontrollers.

Phylodynamic inference

A PyTorch Basecaller for Oxford Nanopore Reads

🌠 Manage your shell commands.

Official implementation for HyenaDNA, a long-range genomic foundation model built with Hyena

Materials for workshop on basic genome-wide data analysis in Thailand, Nov. 2023

List of gene lists for genomic analyses.