4.1 GWAS in GAPIT

In this section, we’re demonstrate how users can conduct GAPIT GWAS with PLINK files. Compressed mixed linear model will be used in this study.

Prepare PLINK files

Fig. Check if the format is PLINK

Import files

Fig. Import files to iPat

Define GAPIT

Fig. Define GAPIT analysis

Inspect results

Fig. Files will be generated while iPat is running