Alternatives and similar repositories for AdmixTools

Users that are interested in AdmixTools are comparing it to the libraries listed below

• lh3 / psmc
  Implementation of the Pairwise Sequentially Markovian Coalescent (PSMC) model
  ☆172Updated 2 years ago
• popgenmethods / smcpp
  SMC++ infers population history from whole-genome sequence data.
  ☆167Updated last year
• ANGSD / angsd
  Program for analysing NGS data.
  ☆242Updated 6 months ago
• voichek / kmersGWAS
  A library for running k-mers based GWAS
  ☆115Updated 10 months ago
• millanek / Dsuite
  Fast calculation of Patterson's D (ABBA-BABA) and the f4-ratio statistics across many populations/species
  ☆177Updated 9 months ago
• mfumagalli / ngsTools
  Programs to analyse NGS data for population genetics purposes
  ☆176Updated last year
• szpiech / selscan
  Haplotype based scans for selection
  ☆131Updated 3 weeks ago
• hahnlab / CAFE
  Analyze changes in gene family size and provide a statistical foundation for evolutionary inferences.
  ☆117Updated 4 years ago
• ksamuk / pixy
  Software for painlessly estimating average nucleotide diversity within and between populations
  ☆140Updated last month
• BGI-shenzhen / PopLDdecay
  PopLDdecay: a fast and effective tool for linkage disequilibrium decay analysis based on variant call format(VCF) files
  ☆196Updated last year
• ColonnaLab / EMBO_popgen
  ☆17Updated 2 months ago
• isaacovercast / easySFS
  Effective selection of population size projection for construction of the site frequency spectrum. Convert VCF to dadi/fastsimcoal style …
  ☆156Updated last year
• dipetkov / eems
  Estimating Effective Migration Surfaces
  ☆106Updated last year
• tpoorten / dotPlotly
  Generate an interactive dot plot from mummer or minimap alignments
  ☆209Updated last year
• rajanil / fastStructure
  A variational framework for inferring population structure from SNP genotype data.
  ☆142Updated 2 years ago
• malonge / RaGOO
  RaGOO is no longer supported. Please use RagTag instead: https://github.com/malonge/RagTag
  ☆172Updated 4 years ago
• jtlovell / GENESPACE
  ☆216Updated 7 months ago
• mossmatters / HybPiper
  Recovering genes from targeted sequence capture data
  ☆128Updated 2 months ago
• chasewnelson / SNPGenie
  Program for estimating πN/πS, dN/dS, and other diversity measures from next-generation sequencing data
  ☆117Updated 2 years ago
• JimWhiting91 / genotype_plot
  A set of functions to visualise genotypes based on a VCF
  ☆87Updated 3 years ago
• KamilSJaron / smudgeplot
  Inference of ploidy and heterozygosity structure using whole genome sequencing data
  ☆276Updated 2 weeks ago
• speciationgenomics / scripts
  Scripts for analysis used during the course
  ☆92Updated last year
• chrishah / MITObim
  MITObim - mitochondrial baiting and iterative mapping
  ☆114Updated 4 years ago
• roblanf / minion_qc
  Quality control for MinION sequencing data
  ☆216Updated 2 years ago
• hardingnj / xpclr
  Code to compute the XP-CLR statistic to infer natural selection
  ☆98Updated 3 years ago
• DReichLab / EIG
  Eigen tools by Nick Patterson and Alkes Price lab
  ☆190Updated last year
• linzhi2013 / MitoZ
  MitoZ: A toolkit for assembly, annotation, and visualization of animal mitochondrial genomes
  ☆128Updated 10 months ago
• marcelauliano / MitoHiFi
  Find, circularise and annotate mitogenome from PacBio assemblies
  ☆186Updated 4 months ago
• edgardomortiz / vcf2phylip
  Convert SNPs in VCF format to PHYLIP, NEXUS, binary NEXUS, or FASTA alignments for phylogenetic analysis
  ☆314Updated 2 years ago
• jpuritz / dDocent
  a bash pipeline for RAD sequencing
  ☆55Updated 7 months ago