Alternatives and similar repositories for LDJump

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

• joepickrell / pophistory-tutorial
  Tutorial on using popular tools for learning about population history
  ☆52Updated 7 years 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
• stschiff / msmc-tools
  Tools and Utilities for msmc and msmc2
  ☆49Updated 4 months ago
• mfumagalli / ngsPopGen
  Population genetics analyses from NGS data
  ☆25Updated 4 years ago
• tsackton / linked-selection
  ☆24Updated 8 years ago
• petrelharp / local_pca
  Methods for examining PCA locally along the genome.
  ☆86Updated last year
• alek0991 / iSAFE
  Pinpoints the mutation favored by selection
  ☆34Updated 4 years ago
• stevemussmann / admixturePipeline
  A pipeline that accepts a VCF file to run through Admixture
  ☆63Updated 11 months ago
• auton1 / LDhat
  Estimate recombination rates from population genetic data
  ☆70Updated 5 years ago
• evotools / hapbin
  Efficient program for calculating Extended Haplotype Homozygosity (EHH) and Integrated Haplotype Score (iHS)
  ☆45Updated 6 years ago
• popgenmethods / momi2
  Infer demographic history with the Moran model
  ☆50Updated 5 months ago
• Rosemeis / pcangsd
  Framework for analyzing low depth NGS data in heterogeneous populations using PCA.
  ☆56Updated 5 months ago
• ListerLab / TEPID
  Transposable element polymorphism identification
  ☆34Updated 5 years ago
• petrikemppainen / LDna
  LDna: an R package to perform linkage disequilibrium network analysis
  ☆31Updated last year
• alachins / raisd
  RAiSD: software to detect positive selection based on multiple signatures of a selective sweep and SNP vectors
  ☆36Updated 2 years ago
• tonig-evo / workshop-popgenome
  Tutorial about R package PopGenome
  ☆44Updated 6 years ago
• bergmanlab / TELR
  TELR is a fast non-reference transposable element detector from long read sequencing data.
  ☆35Updated 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
  ☆68Updated last month
• JiangYuLab / CNVcaller
  ☆42Updated last year
• drostlab / LTRpred
  De novo annotation of young retrotransposons
  ☆48Updated 3 years ago
• kr-colab / diploSHIC
  feature-based deep learning for the identification of selective sweeps
  ☆57Updated 3 weeks ago
• mmatschiner / F4
  Assessing confidence in introgression among four populations
  ☆27Updated 4 years ago
• paula-tataru / polyDFE
  predicting DFE and alpha from polymorphism data
  ☆28Updated 7 years ago
• FerRacimo / GRoSS
  Graph-aware Retrieval of Selective Sweeps
  ☆22Updated last year
• rwdavies / QUILT
  QUILT: Low coverage whole genome sequence imputation with large reference panels
  ☆65Updated last month
• mfumagalli / Copenhagen
  Analysis of genotyping and next-generation sequencing data in medical and population genetics
  ☆23Updated 3 years ago
• xiekunwhy / bsa
  Bulked-Segregant Analysis using vcf file with or without parents
  ☆31Updated 11 months ago
• MikkelSchubert / paleomix
  Pipelines and tools for the processing of ancient and modern HTS data.
  ☆47Updated last month
• mojaveazure / angsd-wrapper
  Utilities for analyzing next generation sequencing data
  ☆17Updated 7 years ago
• Popgen48 / scalepopgen
  ☆25Updated last year