MesserLab / SLiM

Related projects: ⓘ

• tskit-dev / msprime
  Simulate genealogical trees and genomic sequence data using population genetic models
  ☆172Updated 2 weeks ago
• popsim-consortium / stdpopsim
  A library of standard population genetic models
  ☆122Updated last month
• ksamuk / pixy
  Software for painlessly estimating average nucleotide diversity within and between populations
  ☆115Updated 3 months ago
• mossmatters / HybPiper
  Recovering genes from targeted sequence capture data
  ☆108Updated last week
• lh3 / psmc
  Implementation of the Pairwise Sequentially Markovian Coalescent (PSMC) model
  ☆147Updated last year
• Cibiv / IQ-TREE
  Efficient phylogenomic software by maximum likelihood
  ☆184Updated 2 years ago
• bpp / bpp
  Bayesian analysis of genomic sequence data under the multispecies coalescent model
  ☆87Updated 2 weeks ago
• isaacovercast / easySFS
  Effective selection of population size projection for construction of the site frequency spectrum. Convert VCF to dadi/fastsimcoal style …
  ☆124Updated last month
• edgardomortiz / vcf2phylip
  Convert SNPs in VCF format to PHYLIP, NEXUS, binary NEXUS, or FASTA alignments for phylogenetic analysis
  ☆286Updated last year
• ANGSD / angsd
  Program for analysing NGS data.
  ☆228Updated 5 months ago
• millanek / Dsuite
  Fast calculation of Patterson's D (ABBA-BABA) and the f4-ratio statistics across many populations/species
  ☆160Updated 5 months ago
• szpiech / selscan
  Haplotype based scans for selection
  ☆111Updated last month
• abacus-gene / paml
  PAML is a program package for model fitting and phylogenetic tree reconstruction using DNA and protein sequence data. Please report only …
  ☆107Updated 4 months ago
• popgenmethods / smcpp
  SMC++ infers population history from whole-genome sequence data.
  ☆149Updated 8 months ago
• voichek / kmersGWAS
  A library for running k-mers based GWAS
  ☆100Updated last year
• kcleal / gw
  Genome browser and variant annotation
  ☆257Updated last week
• chasewnelson / SNPGenie
  Program for estimating πN/πS, dN/dS, and other diversity measures from next-generation sequencing data
  ☆104Updated last year
• pierrebarbera / epa-ng
  Massively parallel phylogenetic placement of genetic sequences
  ☆77Updated 2 years ago
• sanger-pathogens / snp-sites
  Finds SNP sites from a multi-FASTA alignment file
  ☆235Updated 3 years ago
• jade-cheng / ohana
  mixture classification, constraint optimization, outlier detection, population structure, admixture history, and selection detection.
  ☆81Updated 3 years ago
• hahnlab / CAFE
  Analyze changes in gene family size and provide a statistical foundation for evolutionary inferences.
  ☆111Updated 3 years ago
• mfumagalli / ngsTools
  Programs to analyse NGS data for population genetics purposes
  ☆161Updated 3 weeks ago
• schneebergerlab / plotsr
  Tool to plot synteny and structural rearrangements between genomes
  ☆276Updated 3 months ago
• jtlovell / GENESPACE
  ☆184Updated last month
• conchoecia / odp
  oxford dot plots
  ☆130Updated last month
• VGP / vgp-assembly
  VGP repository for the genome assembly working group
  ☆185Updated last year
• jpuritz / dDocent
  a bash pipeline for RAD sequencing
  ☆52Updated 4 months ago
• DReichLab / AdmixTools
  Tools test whether admixture occurred and more
  ☆181Updated 2 weeks ago
• rajanil / fastStructure
  A variational framework for inferring population structure from SNP genotype data.
  ☆132Updated last year
• uqrmaie1 / admixtools
  ☆74Updated last month