Convert SNPs in VCF format to PHYLIP, NEXUS, binary NEXUS, or FASTA alignments for phylogenetic analysis

Using de-novo assembly and read-phasing to assemble reference-free diploid genomes

Phasing and scaffolding polyploid genomes based on Pore-C or Hi-C.

LCVCFtools is a program designed for working with VCF files generated from low-coverage whole genome sequencing

Short Sequence Rastreator allows genetic diversity analysis and preparation of input files for other softwares such as STRUCTURE, DARwin and SPAGeDi.

Simulator for the Wright-Fisher model of genetic drift for haploid and diploid populations

Evolution of a diploid population evolving under a form of viability selection and (optionally) sweepstakes reproduction