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hapmap

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Here are 7 public repositories matching this topic...

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All 7 Python 3 Java 1 Jupyter Notebook 1 R 1

Poissonfish / iPat

Star 11

iPat allows you to perform GWAS and GS with drags and clicks!

gui gwas genomics genome analysis vcf hapmap genome-analysis genomic-data-analysis gene-prediction association-studies ipat
  • Updated Jul 12, 2022
  • Java

krishnam / vcf2hmp

Star 7

convert VCF to HMP format

tool convert vcf hapmap hmp
  • Updated Aug 18, 2020
  • Python

npredey / GeneticAncestryTool

Star 3
plink pca principal-component-analysis hapmap bioinformatics-tool gwas-tools
  • Updated Apr 27, 2018
  • Python

AnstMikh / DNA

Star 2

pipeline: from sra, bed, vcf to plink

python r pipeline plink samtools hapmap bcftools sratoolkit plink2 angsd
  • Updated Jul 26, 2021
  • Jupyter Notebook

tbrunetti / CoVE

Star 1

Concordance Validation across Experiments

snps validation pipeline array tgp hapmap concordance 1000genomes
  • Updated Nov 21, 2017

jlboat / hapmap_to_qtl2

Star 0

Convert HapMap file into a useable R qtl2 genotype file

python hapmap qtl-analyses qtl-mapping
  • Updated Aug 16, 2022
  • Python

ebenogoe / FounderForge

Star 0

Point-and-click Shiny app and R package to prepare marker data (VCF, HapMap, numeric, PLINK) as an AlphaSimR founder population - QC, filtering, and export, no coding required.

simulation vcf r-package hapmap plant-breeding shiny-app alphasimr founder-population
  • Updated Jun 21, 2026
  • R

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