hapmap

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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

convert VCF to HMP format

tool convert vcf hapmap hmp

pipeline: from sra, bed, vcf to plink

python r pipeline plink samtools hapmap bcftools sratoolkit plink2 angsd

Concordance Validation across Experiments

snps validation pipeline array tgp hapmap concordance 1000genomes

Convert HapMap file into a useable R qtl2 genotype file

python hapmap qtl-analyses qtl-mapping

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