plane sweep filtering genome alignments

Fast approximate string searching

Tool for fully-automated inference of species trees from raw genome assemblies

online variation graph induction

Metagenomic Binning

Joint inference of hyplotypes and SNV for TGS

A workshop that teaches you how to build your own coding agent. Similar to Roo code, Cline, Amp, Cursor, Windsurf or OpenCode.

Tools for handling Unique Molecular Identifiers in NGS data sets

Single Rust: Pioneering single-cell analysis with Rust's concurrency for scalable, high-throughput pipelines. 🧬🚀

Average Nucleotide Identity analysis with MUMmer under the hood

HIPC pipeline for single-cell RNAseq data integration with scanpy

Accurate Species Tree EstimatoR: a family of optimation algorithms for species tree inference (including ASTRAL & CASTER)

LongcallR is a SNP caller for single molecule long-read RNA-seq data

A new high-resolution long-read metagenome assembler for even noisy reads

Rapid estimation of phylogenetic trees using sketching

A tool for genotyping Variable Number Tandem Repeats (VNTR) from sequence data

Identify and trim terminal repeats from sequences in FASTA files

Phylogenetic compression of extremely large genome collections [661k ↘𝟭𝟲𝗚𝗶𝗕 | BIGSIdata ↘𝟰𝟴𝗚𝗶𝗕 | AllTheBact'23 ↘𝟳𝟱𝗚𝗶𝗕]

RegionScan : A comprehensive R package for region-level genome-wide association testing with integration and visualization of multiple-variant and single-variant hypothesis testing

Embedding-based indexing for compact storage and rapid querying of bacterial pan-genomes

Fast trie-based search for TCR sequences with Levenshtein and substitution matrix support

This package helps wrangle the clinical data in IBD Plexus. IBD Plexus is a data exchange platform designed to accelerate research toward finding cures for Inflammatory Bowel Disease (IBD). To lear…

Centromere sequence analysis using rare k-mer markers