An analysis and visualization platform for 'omics data

An open-source toolkit for large-scale genomic analysis

Tools to work with variant call format files

Implementation of the Pairwise Sequentially Markovian Coalescent (PSMC) model

A fully reproducible and state-of-the-art ancient DNA analysis pipeline

An R package to analyse and visualise admixture proportions from STRUCTURE, fastSTRUCTURE, TESS, ADMIXTURE etc.

Program for estimating πN/πS, dN/dS, and other diversity measures from next-generation sequencing data

Application of pan-genome for population

A flexible, scalable, and reproducible pipeline to automate variant calling from raw sequence reads, with lots of bells and whistles.

PopPUNK 👨‍🎤 (POPulation Partitioning Using Nucleotide Kmers)

VCF2Dis: A new simple and efficient software to calculate p-distance matrix and construct population phylogeny based Variant Call Format

🌶 An R package for genetic analysis of populations with mixed (clonal/sexual) reproduction

Rapid population clustering with autoencoders

Causal Mixture Model for GWAS summary statistics

A library for working with phylogenetic and population genetic data.

LDlinkR

Population genetic simulations in R 🌍

A pipeline to select optimal markers for microbial phylogenomics and species tree estimation using the multispecies coalescent and concatenation approaches

feature-based deep learning for the identification of selective sweeps

deep learning prediction of geographic location from individual genome sequences