This software does not work with software for low-coverage & pooling.
To download this tool, click PEDconvert.zip
PEDconvert tool converts PLINK PED files into Multiple Genes File Format. There are 3 input files for this tool.
- PED file: PLINK PED file
- MAP file: PLINK MAP file
- SNP Info file: SNP Info file, which is discussed below
SNP Info file contains information about each SNP on each line, and there are three columns.
- 1st column: SNP rsID (must be the same rsID as in the MAP file)
- 2nd column: Gene ID (must be an integer)
- 3rd column: Weight of this SNP (must be between 0 and 1)
rs1 1 0.1 rs2 1 0.9 rs3 2 0.3 rs4 2 0.2 rs5 2 0.8
Currently, PEDconvert tool is compatible with Linux systems only (please let me know if you want the tool to be compatible with Windows or Mac).To execute this tool, type
./PEDconvert.sh [prefix of ped/map file] [SNP info file] [output file]For example, if you have test.ped, test.map, test.snpinfo files and output file is test.output, the command should be
./PEDconvert.sh test test.snpinfo test.outputPlease contact Jae Hoon Sul at jhsul at cs dot ucla dot edu if you have more questions or suggestions.