Alternatives and similar repositories for flashpca:

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

• limix / limix
  Linear mixed model for genomic analyses.
  ☆104Updated 3 years ago
• zhengxwen / SNPRelate
  R package: parallel computing toolset for relatedness and principal component analysis of SNP data (Development version only)
  ☆104Updated 3 months ago
• sritchie73 / liftOverPlink
  A wrapper for liftOver for converting plink genotype data between different genome reference builds
  ☆49Updated 6 years ago
• stephenturner / qqman
  An R package for creating Q-Q and manhattan plots from GWAS results
  ☆165Updated 11 months ago
• zhanxw / rvtests
  Rare variant test software for next generation sequencing data
  ☆137Updated 3 years ago
• meyer-lab-cshl / plinkQC
  R package for quality control of plink genetic datasets
  ☆58Updated last month
• slowkoni / rfmix
  RFMIX - Local Ancestry and Admixture Inference Version 2
  ☆82Updated 2 years ago
• poruloh / Eagle
  Haplotype phasing software
  ☆65Updated 4 years ago
• Ripkelab / ricopili
  Main ricopili repo for public releases
  ☆44Updated 2 weeks ago
• mklarqvist / tomahawk
  Fast calculations of linkage-disequilibrium in large-scale human cohorts
  ☆42Updated 5 years ago
• pcgoddard / Burchardlab_Tutorials
  ☆30Updated 3 years ago
• PMBio / peer
  A factor analysis package
  ☆98Updated 12 years ago
• szpiech / selscan
  Haplotype based scans for selection
  ☆120Updated last week
• bvilhjal / ldpred
  ☆96Updated 2 years ago
• UMCUGenetics / MutationalPatterns
  R package for extracting and visualizing mutational patterns in base substitution catalogues
  ☆106Updated 2 years ago
• jianyangqt / gcta
  GCTA software
  ☆89Updated 7 months ago
• Cibiv / NextGenMap
  NextGenMap is a flexible highly sensitive short read mapping tool that handles much higher mismatch rates than comparable algorithms whil…
  ☆87Updated 5 years ago
• lawremi / ggbio
  Grid and ggplot2 based visualization for biological data
  ☆111Updated last year
• tshmak / lassosum
  LASSO for GWAS with summary statistics
  ☆72Updated 4 years ago
• choishingwan / PRSice
  A software package for calculating, applying, evaluating and plotting the results of polygenic risk scores
  ☆191Updated 6 months ago
• PF2-pasteur-fr / SARTools
  Statistical Analysis of RNA-Seq Tools
  ☆106Updated last year
• ryanlayer / gqt
  A genotype query interface.
  ☆135Updated 3 years ago
• statgen / emeraLD
  tools to efficiently retrieve and calculate LD
  ☆33Updated 3 years ago
• cooplab / Popgen_EVE102_2012
  Pdfs of slides from 2018 popgen course
  ☆36Updated 6 years ago
• YinLiLin / hibayes
  Individual-Level, Summary-Level and Single-Step Bayesian Regression Models for Genomic Prediction and Genome-Wide Association Studies
  ☆49Updated last year
• joepickrell / 1000-genomes-genetic-maps
  Genetic maps interpolated to sites in the 1000 Genomes project
  ☆47Updated 9 years ago
• saigegit / SAIGE
  Development for SAIGE and SAIGE-GENE(+)
  ☆70Updated last week
• ChristofferFlensburg / superFreq
  Analysis pipeline for cancer sequencing data
  ☆110Updated 7 months ago
• DReichLab / EIG
  Eigen tools by Nick Patterson and Alkes Price lab
  ☆183Updated last year
• mkanai / fujiplot
  Fuji plot—a circos representation of multiple GWAS results—
  ☆81Updated last year