Alternatives and similar repositories for LDhat:

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

• MikkelSchubert / paleomix
  Pipelines and tools for the processing of ancient and modern HTS data.
  ☆47Updated this week
• sujaikumar / assemblage
  Tools for working with second gen assemblies, fasta sequences, etc
  ☆93Updated 8 years ago
• PhHermann / LDJump
  R Package to Estimate Variable Recombination Rates using Population Genetic Data
  ☆42Updated 5 years ago
• JimWhiting91 / genotype_plot
  A set of functions to visualise genotypes based on a VCF
  ☆85Updated 3 years ago
• stevemussmann / admixturePipeline
  A pipeline that accepts a VCF file to run through Admixture
  ☆58Updated 2 months ago
• tonig-evo / workshop-popgenome
  Tutorial about R package PopGenome
  ☆41Updated 6 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…
  ☆26Updated 6 years ago
• rhysf / Synima
  Synteny Imager
  ☆60Updated 6 months ago
• dwinter / pafr
  Read, manipulate and visualize 'Pairwise mApping Format' data in R
  ☆71Updated 3 years ago
• alek0991 / iSAFE
  Pinpoints the mutation favored by selection
  ☆33Updated 3 years ago
• tatumdmortimer / popgen-stats
  Scripts to calculate population genetics statistics
  ☆55Updated 6 years ago
• mfoll / BayeScan
  Detecting natural selection from population-based genetic data
  ☆27Updated 6 years ago
• stschiff / msmc-tools
  Tools and Utilities for msmc and msmc2
  ☆47Updated last year
• mapleforest / HaploMerger2
  ☆43Updated 8 years ago
• mrmckain / Fast-Plast
  Automated de novo assembly of whole chloroplast genomes.
  ☆45Updated 6 months ago
• GenomicsCoreLeuven / GBSX
  GBSX: a toolkit for experimental design and demultiplexing genotyping by sequencing experiments
  ☆18Updated 8 years ago
• HajkD / LTRpred
  De novo annotation of young retrotransposons
  ☆48Updated 2 years ago
• joepickrell / pophistory-tutorial
  Tutorial on using popular tools for learning about population history
  ☆49Updated 6 years ago
• stschiff / msmc
  Implementation of the multiple sequential markovian coalescent
  ☆87Updated last year
• wurmlab / flo
  Same species annotation lift over pipeline.
  ☆96Updated last year
• clemgoub / dnaPipeTE
  dnaPipeTE (for de-novo assembly & annotation Pipeline for Transposable Elements), is a pipeline designed to find, annotate and quantify T…
  ☆54Updated last year
• enormandeau / gawn
  Genome Annotation Without Nightmares
  ☆43Updated 2 months ago
• MerrimanLab / selectionTools
  Pipeline to take VCF through to Selection Analysis.
  ☆58Updated 2 years ago
• genomeannotation / GAG
  Generates an NCBI .tbl file of annotations on a genome.
  ☆66Updated 7 years ago
• alachins / raisd
  RAiSD: software to detect positive selection based on multiple signatures of a selective sweep and SNP vectors
  ☆35Updated last year
• stschiff / msmc2
  ☆57Updated 2 years ago
• mahulchak / svmu
  A program to call variants from genome alignment
  ☆79Updated last year
• josephryan / estimate_genome_size.pl
  Scripts to estimate genome size and coverage from kmer distribution generated by jellyfish
  ☆56Updated 2 years ago
• kr-colab / diploSHIC
  feature-based deep learning for the identification of selective sweeps
  ☆53Updated this week
• cboursnell / crb-blast
  Conditional Reciprocal Best Blast
  ☆42Updated 8 years ago