Transforms complex documents like PDFs and Office docs into LLM-ready markdown/JSON for your Agentic workflows.

Simple tool for plotting bubbles in a pangenome graph

Pangenome graph-based genome inference

Targeted genotyper for complex polymorphic genes

A bioinformatic toolkit to align genome assemblies into pangenome graphs

A minimal copy fastq and fasta reader built for parallel support and paired end processing

Convert your (Beamer) PDF slides to (Powerpoint) PPTX

Fast approximate string searching

Graphical Fragment Assembly (GFA) Format Specification

Validation of sycnmers compared to minimizers

tools for working with genome variation graphs

Alignment-free phylogenomic splits

Mumemto: multi-MUM and MEM finding across pangenomes

strange cross-platform, performance-oriented and interactive pangenome and large graph visualization

TKDE 2017/Reachability Querying: Can It Be Even Faster?

Explore genomes in the terminal. Light, blazing fast 🚀, vim-motion.

Official home of genome aligner based upon notion of Cactus graphs

Pangenome Sequence Naming: a backwards-compatible hack to simplify the identification of samples and haplotypes in pangenomes

A terminal workspace with batteries included

Conda recipes for the bioconda channel.

WFA-lib: Wavefront alignment algorithm library v2

A collection of modern/faster/saner alternatives to common unix commands.

A beautiful, simple, clean, and responsive Jekyll theme for academics

a Bioinformatics Application for Navigating De novo Assembly Graphs Easily

Convert GFA W-lines to P-lines

the pangenome graph builder