PED_MAP zipped
Francisco García edited this page Apr 7, 2015
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This format is for a compressed archive containing two (a PED and a MAP) files. Babelomics can read .zip, .gz and .tar.gz files but needs to be able to uncompressed data without finding any folder structure.
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The PED file is a white-space (space or tab) delimited file: the first six columns are mandatory:
Family ID
Individual ID
Paternal ID
Maternal ID
Sex (1=male; 2=female; other=unknown)
Phenotype
- The MAP file describes for each line, a single marker and must contain exactly 4 columns:
chromosome (1-22, X, Y or 0 if unplaced)
rs# or snp identifier
Genetic distance (morgans)
Base-pair position (bp units)
- More detail information about PED and MAP formats: http://pngu.mgh.harvard.edu/~purcell/plink/data.shtml#ped, http://pngu.mgh.harvard.edu/~purcell/plink/data.shtml#map
Find the Babelomics suite at http://babelomics.org