Tools to Handle Illumina SNP Final Reports
This script takes two files, 1) a map like file and 2) a final report and does the appropriate conversions to PLINK map and ped files. Running the script will bring you through a wizrd which has you select the appropriate data columms from your files.
Usage: Final2MapPed.py [options]
Options:
-h, --help show this help message and exit
--snp_info=SNP_INFO This input file contains the columns necessary to make
a map file.
--final_report=FINAL_REPORT
This input file contains the columns necessary to make
a ped file.
--output_name=OUTPUT_NAME
This will be the name of your output files.