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The Top 23 Population Genetics Open Source Projects

Open source projects categorized as Population Genetics
Categories > Population Genetics
Anvio ⭐ 396
An analysis and visualization platform for 'omics data
most recent commit 4 months ago
Glow ⭐ 251
An open-source toolkit for large-scale genomic analysis
dependent packages 1total releases 8most recent commit 4 months ago
Vcfr ⭐ 225
Tools to work with variant call format files
dependent packages 29total releases 16most recent commit 6 months ago
Psmc ⭐ 120
Implementation of the Pairwise Sequentially Markovian Coalescent (PSMC) model
most recent commit 2 years ago
Eager ⭐ 112
A fully reproducible and state-of-the-art ancient DNA analysis pipeline
most recent commit 5 months ago
Pophelper ⭐ 106
An R package to analyse and visualise admixture proportions from STRUCTURE, fastSTRUCTURE, TESS, ADMIXTURE etc.
most recent commit 3 years ago
Snpgenie ⭐ 94
Program for estimating πN/πS, dN/dS, and other diversity measures from next-generation sequencing data
most recent commit 9 months ago
Grenepipe ⭐ 75
A flexible, scalable, and reproducible pipeline to automate variant calling from sequence reads.
most recent commit 5 months ago
Poppunk ⭐ 71
PopPUNK 👨‍🎤 (POPulation Partitioning Using Nucleotide Kmers)
total releases 22most recent commit 6 months ago
Vcf2dis ⭐ 67
VCF2Dis: A new simple and efficient software to calculate p-distance matrix based Variant Call Format
most recent commit a year ago
Poppr ⭐ 65
🌶 An R package for genetic analysis of populations with mixed (clonal/sexual) reproduction
dependent packages 7total releases 40most recent commit 5 months ago
Genesis ⭐ 54
A library for working with phylogenetic and population genetic data.
most recent commit 6 months ago
Diploshic ⭐ 47
feature-based deep learning for the identification of selective sweeps
total releases 4most recent commit 7 months ago
Slendr ⭐ 46
Population genetic simulations in R 🌍
total releases 8most recent commit 5 months ago
Neural Admixture ⭐ 44
Rapid population clustering with autoencoders
total releases 17most recent commit 8 months ago
Mixer ⭐ 41
Causal Mixture Model for GWAS summary statistics
most recent commit 6 months ago
Tomahawk ⭐ 39
Fast calculations of linkage-disequilibrium in large-scale human cohorts
most recent commit 5 years ago
Get_phylomarkers ⭐ 39
A pipeline to select optimal markers for microbial phylogenomics and species tree estimation using the multispecies coalescent and concatenation approaches
most recent commit a year ago
Ldlinkr ⭐ 30
LDlinkR
most recent commit a year ago
Admixr ⭐ 25
An R package for reproducible and automated ADMIXTOOLS analyses
total releases 1most recent commit a year ago
Locator ⭐ 25
deep learning prediction of geographic location from individual genome sequences
most recent commit 3 years ago
Fwdpy11 ⭐ 25
Forward-time simulation in Python using fwdpp
total releases 103most recent commit 4 months ago
Panpop ⭐ 24
Application of pan-genome for population
most recent commit 5 months ago
The 4 Most Depended On Population Genetics Open Source Projects
Vcfr ⭐ 225
Tools to work with variant call format files
dependent packages 29total releases 16latest release December 08, 2023most recent commit 6 months ago
Poppr ⭐ 65
🌶 An R package for genetic analysis of populations with mixed (clonal/sexual) reproduction
dependent packages 7total releases 40latest release March 23, 2023most recent commit 5 months ago
Opp Op Pop Init ⭐ 6
PyPI package containing opposition learning operators and population initializers for evolutionary algorithms
dependent packages 2total releases 9latest release January 06, 2023most recent commit a year agopypi OppOpPopInit} Downloads
Glow ⭐ 251
An open-source toolkit for large-scale genomic analysis
dependent packages 1total releases 8latest release June 23, 2020most recent commit 4 months ago
The 10 Latest Releases In Population Genetics Open Source Projects
Vcfr ⭐ 225
Tools to work with variant call format files
dependent packages 29total releases 16latest release December 08, 2023most recent commit 6 months ago
Fwdpy11 ⭐ 25
Forward-time simulation in Python using fwdpp
total releases 103latest release December 01, 2023most recent commit 4 months ago
Diploshic ⭐ 47
feature-based deep learning for the identification of selective sweeps
total releases 4latest release November 15, 2023most recent commit 7 months ago
Neural Admixture ⭐ 44
Rapid population clustering with autoencoders
total releases 17latest release September 27, 2023most recent commit 8 months ago
Slendr ⭐ 46
Population genetic simulations in R 🌍
total releases 8latest release July 14, 2023most recent commit 5 months ago
Poppr ⭐ 65
🌶 An R package for genetic analysis of populations with mixed (clonal/sexual) reproduction
dependent packages 7total releases 40latest release March 23, 2023most recent commit 5 months ago
Opp Op Pop Init ⭐ 6
PyPI package containing opposition learning operators and population initializers for evolutionary algorithms
dependent packages 2total releases 9latest release January 06, 2023most recent commit a year agopypi OppOpPopInit} Downloads
Poppunk ⭐ 71
PopPUNK 👨‍🎤 (POPulation Partitioning Using Nucleotide Kmers)
total releases 22latest release December 31, 2020most recent commit 6 months ago
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