tskit-dev / msprimeLinks
Simulate genealogical trees and genomic sequence data using population genetic models
☆201Updated last month
Alternatives and similar repositories for msprime
Users that are interested in msprime are comparing it to the libraries listed below
Sorting:
- A library of standard population genetic models☆137Updated this week
 - Population-scale Ancestral Recombination Graph (ARG) library☆174Updated this week
 - SLiM is a genetically explicit forward simulation software package for population genetics and evolutionary biology. It is highly flexib…☆196Updated this week
 - Programs to analyse NGS data for population genetics purposes☆177Updated last year
 - A variational framework for inferring population structure from SNP genotype data.☆143Updated 2 years ago
 - phylogenetics tools for linux (and other mostly posix compliant) computers☆122Updated 9 months ago
 - Software for painlessly estimating average nucleotide diversity within and between populations☆147Updated last week
 - A fully reproducible and state-of-the-art ancient DNA analysis pipeline☆186Updated last week
 - ☆85Updated 4 months ago
 - Tools test whether admixture occurred and more☆210Updated last year
 - Implementation of the Pairwise Sequentially Markovian Coalescent (PSMC) model☆174Updated this week
 - Estimating Effective Migration Surfaces☆107Updated 2 years ago
 - Efficient phylogenomic software by maximum likelihood☆203Updated 3 years ago
 - Program for analysing NGS data.☆245Updated 7 months ago
 - Maximum likelihood inference of time stamped phylogenies and ancestral reconstruction☆247Updated this week
 - Calculate summary statistics and manipulate multiple sequence alignments☆87Updated last year
 - Infer a tree sequence from genetic variation data.☆60Updated 2 weeks ago
 - Lecture Notes on Computational and Mathematical Population Genetics☆194Updated 4 years ago
 - a bash pipeline for RAD sequencing☆55Updated 9 months ago
 - Recovering genes from targeted sequence capture data☆128Updated 4 months ago
 - A flexible, scalable, and reproducible pipeline to automate variant calling from raw sequence reads, with lots of bells and whistles - fo…☆108Updated 4 months ago
 - Bioinformatic pipeline for processing Sequence Capture data for Phylogenetics☆23Updated 2 years ago
 - Fast calculation of Patterson's D (ABBA-BABA) and the f4-ratio statistics across many populations/species☆179Updated 10 months ago
 - mixture classification, constraint optimization, outlier detection, population structure, admixture history, and selection detection.☆87Updated 4 years ago
 - Bayesian Evolutionary Analysis by Sampling Trees☆258Updated 2 months ago
 - simple examples of using supervised machine learning for population genetics inference☆39Updated 8 years ago
 - SMC++ infers population history from whole-genome sequence data.☆167Updated last year
 - Inference of ploidy and heterozygosity structure using whole genome sequencing data☆281Updated last month
 - A toolkit for analyzing and visualizing phylogenetic placement data☆62Updated 2 weeks ago
 - A library for running k-mers based GWAS☆118Updated last year