Alternatives and similar repositories for pseudoRef

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

• mojaveazure / angsd-wrapper
  Utilities for analyzing next generation sequencing data
  ☆17Updated 7 years ago
• bergmanlab / TELR
  TELR is a fast non-reference transposable element detector from long read sequencing data.
  ☆34Updated 2 years ago
• stschiff / msmc-tools
  Tools and Utilities for msmc and msmc2
  ☆48Updated 2 months ago
• Rosemeis / pcangsd
  Framework for analyzing low depth NGS data in heterogeneous populations using PCA.
  ☆54Updated 4 months ago
• mfumagalli / ngsPopGen
  Population genetics analyses from NGS data
  ☆25Updated 4 years ago
• ListerLab / TEPID
  Transposable element polymorphism identification
  ☆34Updated 5 years ago
• joepickrell / pophistory-tutorial
  Tutorial on using popular tools for learning about population history
  ☆52Updated 7 years ago
• danjlawson / badMIXTURE
  R package for comparing mixture solutions to similarity data, with a focus STRUCTURE like models to ChromoPainter palettes
  ☆27Updated 6 years ago
• PhHermann / LDJump
  R Package to Estimate Variable Recombination Rates using Population Genetic Data
  ☆42Updated 5 years ago
• alachins / sweed
  Likelihood-based Selective Sweep Detection
  ☆40Updated 2 years ago
• owensgl / reformat
  Scripts for reformatting data. Mainly from tab separated to an esoteric program specific format
  ☆13Updated 8 months ago
• sansubs / vcf2pop
  ☆29Updated last year
• 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 7 years ago
• mcstitzer / maize_v4_TE_annotation
  scripts and intermediate files used to annotate TEs in Jiao et al.
  ☆35Updated 7 years ago
• jbelyeu / SV-plaudit
  Pipeline for structural variant image curation and analysis.
  ☆48Updated 3 years ago
• devillemereuil / bayescenv
  BayeScEnv is a Fst-based, genome-scan method that uses environmental variables to detect local adaptation.
  ☆18Updated 8 years ago
• oushujun / MTEC
  A repo contains historical and updated MTEC libraries.
  ☆18Updated 5 years ago
• popgenmethods / momi2
  Infer demographic history with the Moran model
  ☆48Updated 4 months ago
• johnssproul / RepeatProfiler
  ☆26Updated 8 months ago
• paula-tataru / polyDFE
  predicting DFE and alpha from polymorphism data
  ☆27Updated 7 years ago
• reubwn / collinearity
  scripts to parse and analyse MCScanX collinearity output
  ☆32Updated 5 years ago
• grenaud / leeHom
  Bayesian reconstruction of ancient DNA fragments
  ☆30Updated last year
• 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
• 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 last year
• clwgg / nQuire
  A statistical framework for ploidy estimation using NGS short-read data
  ☆62Updated 7 years ago
• Farre-lab / syntenyPlotteR
  R package to draw syntenic plots in 3 different styles
  ☆42Updated 2 months ago
• kristinmlee / dmc
  Distinguishing among modes of convergent adaptation using population genomic data: statistical inference method, extensions, and examples
  ☆13Updated 6 years ago
• enormandeau / gawn
  Genome Annotation Without Nightmares
  ☆46Updated 9 months ago
• lh3 / calN50
  Compute N50/NG50 and auN/auNG
  ☆33Updated 2 years ago
• timbeissinger / Maize-Teo-Scripts
  ☆17Updated 9 years ago