PLINK Binary Input Engine

The PLINK Binary Input Engine imports a PLINK (Purcell et al., 2007) binary file ( .bed ) and associated text files ( .bim and .fam ) into a SAS data set containing the marker genotypes and traits , and a SAS data set containing annotation (marker map) information.

What do I need?

Three files are needed to run this process:

•	The PED file in binary format ( .bed ). The SNP_984_sample1000.bed file included in the SNP984_Sample1000 sample setting for this process serves as an example.

•	The extended map text file ( .bim ). The SNP_984_sample1000.bim file serves as an example and is partially shown below.

•	The .fam text file. The SNP_984_sample1000.fam file serves as an example and is partially shown below.

All files included in the SNP984_Sample1000 sample setting for this process were downloaded from http://www.hsph.harvard.edu/research/skat/download/ . For additional details about the required file formats, please refer to the following links:

•	http://pngu.mgh.harvard.edu/~purcell/plink/

•	http://pngu.mgh.harvard.edu/~purcell/plink/data.shtml

•	http://pngu.mgh.harvard.edu/~purcell/plink/binary.shtml

For detailed information about the files and data sets used or created by JMP Life Sciences software, see Files and Data Sets .

Output/Results

The output data sets generated by this process are listed in a Results window. Refer to the PLINK Binary Input Engine output documentation for detailed descriptions.