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.
  ☆35Updated 2 years ago
• Rosemeis / pcangsd
  Framework for analyzing low depth NGS data in heterogeneous populations using PCA.
  ☆56Updated 5 months ago
• stschiff / msmc-tools
  Tools and Utilities for msmc and msmc2
  ☆49Updated 4 months ago
• danjlawson / badMIXTURE
  R package for comparing mixture solutions to similarity data, with a focus STRUCTURE like models to ChromoPainter palettes
  ☆29Updated 6 years ago
• johnssproul / RepeatProfiler
  ☆26Updated 9 months ago
• alachins / sweed
  Likelihood-based Selective Sweep Detection
  ☆40Updated 2 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
• 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
• dwinter / pafr
  Read, manipulate and visualize 'Pairwise mApping Format' data in R
  ☆76Updated 4 years ago
• joepickrell / pophistory-tutorial
  Tutorial on using popular tools for learning about population history
  ☆52Updated 7 years ago
• lh3 / calN50
  Compute N50/NG50 and auN/auNG
  ☆33Updated 2 years ago
• timbeissinger / Maize-Teo-Scripts
  ☆17Updated 10 years ago
• popgenmethods / momi2
  Infer demographic history with the Moran model
  ☆50Updated 5 months ago
• enormandeau / gawn
  Genome Annotation Without Nightmares
  ☆46Updated 10 months ago
• LynchLab / MAPGD
  A program for the Maximum-likelihood analysis of population genomic data.
  ☆30Updated 4 years ago
• paula-tataru / polyDFE
  predicting DFE and alpha from polymorphism data
  ☆28Updated 7 years ago
• petrelharp / local_pca
  Methods for examining PCA locally along the genome.
  ☆86Updated 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
• clwgg / nQuire
  A statistical framework for ploidy estimation using NGS short-read data
  ☆62Updated 7 years ago
• reubwn / collinearity
  scripts to parse and analyse MCScanX collinearity output
  ☆32Updated 5 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
• PhHermann / LDJump
  R Package to Estimate Variable Recombination Rates using Population Genetic Data
  ☆43Updated 6 years ago
• ThomasTaus / poolSeq
  Analyze and simulate Pool-Seq time series data
  ☆17Updated 3 years ago
• StevenMicheletti / poolparty
  Whole-genome bioinformatic pipeline for pooled or individual-based NGS data using bash and R
  ☆21Updated 3 years ago
• HuffordLab / GenomeQC
  ☆33Updated 4 years ago
• owensgl / reformat
  Scripts for reformatting data. Mainly from tab separated to an esoteric program specific format
  ☆13Updated 9 months ago
• grenaud / leeHom
  Bayesian reconstruction of ancient DNA fragments
  ☆30Updated last year
• cboursnell / crb-blast
  Conditional Reciprocal Best Blast
  ☆42Updated 8 years ago