Scripts used for GWAS analysis (PLINK, CNN, etc.)
Download the CNN source code from: https://github.com/ProductiveOwl/Soybean-CNN.
The script CNN_Setup.sh was used to setup and run the code for the height phenotype on the Digital Research Alliance of Canada Servers. After the setup is complete, the script CNN_Run.sh can be used to for additional runs.
The scripts are used to convert the easyGWAS data into a format suitable for the CNN. It includes files to clean and transform the data into PLINK and CNN compatible files.