资源介绍
This dataset contains genotypes for 106 Swiss Large White boars that were used to map a stump tail sperm defect and a VCF file that contains genotypes of candiate variants for 87 boars.
The subdirectories contain plink binaries, corresponding phased haplotypes (in MaCH format), the results of a haplotype-based GWAS, and a VCF file that contains genotypes at candidate causal variants.
The affection status (case=2, control=1) of 106 boars is indicated in the file "pheno".
The R script "haplo_linear.R" performs the haplotype-based association study.
The README file provides instructions on how to run the GWAS as well as on how to create the Manhattan plot.
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