Variation
A VCF comparison engine for structual variant benchmarking
An R package for predicting ploidal level from sequence data using site-based heterozygosity
Bioinformatics tools for dealing with Multiple Alignment Format (MAF) files.
The powerful `awk` script to calculate pi, Dxy and Fst in polyploid VCF files with mixed-ploidy groups support
Inferring natural selection by comparative population genomic analysis across species
An ultra-fast and efficient genomic tool for coverage calculation
Rust package for constructing and analyzing phylogenies.
Accurate Species Tree EstimatoR: a family of optimation algorithms for species tree inference (including ASTRAL & CASTER)
PanEffect is a JavaScript framework to explore variant effects across a pangenome. The tool has two views that allows a user to (1) explore all possible amino acid substitutions and their variant e…
Generate pan-gene sets, given a collection of genome assemblies and corresponding gene models.
command-line tools for the management of genotype likelihoods and allele counts