Reorienting unitigs to reduce the number of dummy nodes in an SBWT.
Convert node-centric de Bruijn graphs as output by BCALM2 into arc-centric de Bruijn graphs as edge lists
An algorithm for calculating flowtigs in a De Bruijn graph of DNA reads in metagenomes.
k-mer-based non-Bayesian Taxonomic Classifier
gfatk is a command line tool for manipulating small to medium sized GFA files, and specifically for output from the genome assembler MBG.
rvDNA — AI-native genomic analysis. 20-SNP biomarker risk scoring, streaming anomaly detection, 64-dim profile vectors, 23andMe genotyping, CYP2D6/CYP2C19 pharmacogenomics, variant calling, protein prediction, and HNSW vector search in pure Rust.
omicsx: SIMD-accelerated sequence alignment and bioinformatics analysis for petabyte-scale genomic data
Neighbor-Joining phylogenetic tree inference. Auto-detects DNA/protein, supports multiple substitution models and bootstrap.
A uv-style tool manager for bioinformatics: reproducible Docker-backed tools with digest-pinned lockfiles (installs as `bv`)
Back to sequences: find the origin of kmers
A library and an associated executable, the library provides tools for building tools that can parse and work for VCF and FASTA files while the associated executable is a command line tool for generating protein sequences from a reference FASTA file and a VCF file
GPU-accelerated FM-index construction for DNA sequences via WebGPU