Replication Data for: Design and validation of a 90K SNP genotyping assay for the Water Buffalo (Bubalus bubalis)

Abstract

This .zip file contains 3 files: 2 PLINK files containing the genotype information and one residual file containing the phenotypic information used for this paper. - genabelLATT.tped -> Transposed ped file in PLINK format. Genotypes are already edited for MAF as declared in the paper. - genabelLATT.tfam -> Transposed map file in PLINK format, containing 529 individuals. - RESIDUALS.txt -> File containing the residuals used for the GWAS in this paper. The model used to obtain this data from raw files was: Lact_record ~ Farm + CalvYear + CalvMonth + CalvingNumber + Age + Polygenic_effect + e The "e" term was then used as dependent variable in a GWAS using qtscore function in GENABEL