Created by: Esteban Lopera, Robert Warmerdam
Created on: 25-09-2021.
Contact information: e.a.lopera.maya@umcg.nl.
Here you will find the script used to calculate GWAS for microbiome features in the UMCG high performace computing cluster.
-Genotype files (VCF, BGEN or GDS).
-Phenotype(s) files.
-list of selected SNPs for GRM (GDS or plink format).
-list of covariates (or model).
Prepare vcf of bgen files with their respective index files and make sure they have the dosage (DS field).
Detailed instructions are found in the respective folder.