Alternatives and similar repositories for LDna

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

• PhHermann / LDJump
  R Package to Estimate Variable Recombination Rates using Population Genetic Data
  ☆42Updated 5 years ago
• speciationgenomics / presentations
  Presentations from the course
  ☆37Updated 2 years ago
• petrelharp / local_pca
  Methods for examining PCA locally along the genome.
  ☆83Updated last year
• speciationgenomics / speciationgenomics.github.io
  Repository for speciation genomics website
  ☆26Updated 2 weeks ago
• mmatschiner / F4
  Assessing confidence in introgression among four populations
  ☆27Updated 4 years ago
• FerRacimo / GRoSS
  Graph-aware Retrieval of Selective Sweeps
  ☆22Updated last year
• esrud / GONE
  GONE: Scripts, programs and an example data set
  ☆46Updated last month
• popgenmethods / momi2
  Infer demographic history with the Moran model
  ☆48Updated 3 months ago
• shenglin-liu / vcf2sfs
  R functions for generating site frequency spectra (SFS) from a VCF file.
  ☆28Updated 5 years ago
• simonhmartin / twisst
  Topology weighting by iterative sampling of sub-trees
  ☆81Updated 8 months ago
• mennodejong1986 / SambaR
  SambaR: Snp datA Management and Basic Analyses in R
  ☆30Updated 3 weeks ago
• mfumagalli / ngsPopGen
  Population genetics analyses from NGS data
  ☆25Updated 4 years ago
• tonig-evo / workshop-popgenome
  Tutorial about R package PopGenome
  ☆43Updated 6 years ago
• miriammiyagi / QuIBL
  Quantifying Introgression via Branch Lengths
  ☆54Updated 2 years ago
• joepickrell / pophistory-tutorial
  Tutorial on using popular tools for learning about population history
  ☆51Updated 7 years ago
• tsackton / linked-selection
  ☆24Updated 8 years ago
• RILAB / mop
  Simple tool for capturing alignment regions with sufficient quality for genotyping.
  ☆21Updated 4 years ago
• alachins / raisd
  RAiSD: software to detect positive selection based on multiple signatures of a selective sweep and SNP vectors
  ☆36Updated last year
• rotifergirl / EvoEco-ECR-brainstorming
  ☆10Updated 5 years ago
• stevemussmann / admixturePipeline
  A pipeline that accepts a VCF file to run through Admixture
  ☆62Updated 8 months ago
• sudmantlab / loco-pipe
  loco-pipe is an automated Snakemake pipeline that streamlines a set of essential population genomic analyses for low-coverage whole genom…
  ☆17Updated 3 months ago
• ngarud / SelectionHapStats
  SelectionHapStats is a repository of Python scripts written to identify natural selection events in the genome and R scripts written to v…
  ☆27Updated 7 years ago
• russcd / Ancestry_HMM
  ☆31Updated 2 years ago
• nt246 / physalia-lcwgs
  Files for the the Physalia course on Population genomic inference from low-coverage whole-genome sequencing data, Oct 10-13, 2022
  ☆62Updated 10 months ago
• pblischak / HyDe
  Hybridization detection using phylogenetic invariants
  ☆48Updated 10 months ago
• kr-colab / diploSHIC
  feature-based deep learning for the identification of selective sweeps
  ☆56Updated 3 months ago
• carolindahms / TreeMix
  Scripts to analyze data using TreeMix. This pipeline runs TreeMix with bootstrapping, helps choose number of migration events and creates…
  ☆37Updated last year
• mfoll / BayeScan
  Detecting natural selection from population-based genetic data
  ☆27Updated 6 years ago
• dportik / dadi_pipeline
  An accessible and flexible tool for fitting demographic models with dadi using custom or published models (available here), conducting go…
  ☆65Updated last year
• alek0991 / iSAFE
  Pinpoints the mutation favored by selection
  ☆34Updated 3 years ago