Alternatives and similar repositories for ddRADseqTools

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

• johnssproul / RepeatProfiler
  ☆27Updated 11 months ago
• z0on / 2bRAD_denovo
  Genome-wide de novo genotyping with 2bRAD
  ☆23Updated 8 months ago
• petrelharp / local_pca
  Methods for examining PCA locally along the genome.
  ☆88Updated last year
• mfumagalli / ngsPopGen
  Population genetics analyses from NGS data
  ☆26Updated 4 years ago
• PhHermann / LDJump
  R Package to Estimate Variable Recombination Rates using Population Genetic Data
  ☆44Updated 6 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
  ☆69Updated 3 months ago
• mfoll / BayeScan
  Detecting natural selection from population-based genetic data
  ☆28Updated 6 years ago
• sansubs / vcf2pop
  ☆29Updated last year
• stevemussmann / admixturePipeline
  A pipeline that accepts a VCF file to run through Admixture
  ☆63Updated last year
• mrmckain / Fast-Plast
  Automated de novo assembly of whole chloroplast genomes.
  ☆48Updated last year
• schneebergerlab / findGSE
  findGSE is a tool for estimating size of (heterozygous diploid or homozygous) genomes by fitting k-mer frequencies iteratively with a ske…
  ☆38Updated 2 years ago
• clwgg / nQuire
  A statistical framework for ploidy estimation using NGS short-read data
  ☆62Updated 7 years ago
• drostlab / LTRpred
  De novo annotation of young retrotransposons
  ☆47Updated 3 years ago
• ListerLab / TEPID
  Transposable element polymorphism identification
  ☆34Updated 5 years ago
• jendelman / GWASpoly
  GWAS software that can handle autopolyploids
  ☆32Updated 3 months ago
• dwinter / pafr
  Read, manipulate and visualize 'Pairwise mApping Format' data in R
  ☆77Updated 4 years ago
• yongzhiyang2012 / WGDdetector
  ☆21Updated 6 years ago
• DReichLab / adna-workflow
  Workflow for processing Illumina sequencing runs for ancient human DNA
  ☆25Updated 5 years ago
• speciationgenomics / speciationgenomics.github.io
  Repository for speciation genomics website
  ☆27Updated 5 months ago
• genomeannotation / GAG
  Generates an NCBI .tbl file of annotations on a genome.
  ☆68Updated 7 years ago
• mcstitzer / maize_v4_TE_annotation
  scripts and intermediate files used to annotate TEs in Jiao et al.
  ☆34Updated 7 years ago
• millanek / fineRADstructure
  A package for population structure inference from RAD-seq data
  ☆34Updated 4 years ago
• mscampbell / Genome_annotation
  These are scripts that I use frequently in genome annotation projects. Some of them have evolved awkwardly so the code is difficult to fo…
  ☆16Updated 8 years ago
• tonig-evo / workshop-popgenome
  Tutorial about R package PopGenome
  ☆43Updated 6 years ago
• joepickrell / pophistory-tutorial
  Tutorial on using popular tools for learning about population history
  ☆53Updated 7 years ago
• josephryan / estimate_genome_size.pl
  Scripts to estimate genome size and coverage from kmer distribution generated by jellyfish
  ☆57Updated 3 years ago
• Rosemeis / pcangsd
  Framework for analyzing low depth NGS data in heterogeneous populations using PCA.
  ☆58Updated 7 months ago
• stschiff / msmc-tools
  Tools and Utilities for msmc and msmc2
  ☆50Updated 2 weeks ago
• dcgerard / updog
  Flexible Genotyping of Polyploids using Next Generation Sequencing Data
  ☆31Updated this week
• shahab-sarmashghi / RESPECT
  Estimating repeat spectra and genome length from low-coverage genome skims
  ☆12Updated 2 years ago