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

🦖 ClawBio — The first bioinformatics-native AI agent skill library. Local-first. Reproducible. Built on OpenClaw.

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

Implementation of the Pairwise Sequentially Markovian Coalescent (PSMC) model

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 - for sampled individuals, and for pool sequencing.

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

Causal Mixture Model for GWAS summary statistics

Rapid population clustering with autoencoders

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

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

Scalable SQLite database for fast querying of gnomAD variant annotations (allele frequency, depth, population metrics). Supports gnomAD v2-v4, WGS and WES.

deep learning prediction of geographic location from individual genome sequences

Fast, Accurate and Memory-Efficient Principal Component Analysis For Tera-scale Dataset

Toolkit for Population Genetic Statistics from Pool-Sequenced Samples, e.g., in Evolve and Resequence experiments

Fast calculations of linkage-disequilibrium in large-scale human cohorts

A KMER-based genome-wIde Assocation testing approach on polyploids

Genotype Representation Graph Library

rhierbaps: R implementation of hierBAPS

An R interface for the ADMIXTOOLS software

Model-based tumour subclonal deconvolution using population genetics