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==== PED and DAT Files ====
==== PED and DAT Files ====
* When PED file has genotypes saved, there is no need for a VCF file as input.
* When PED file has genotypes saved, there is no need for a VCF file as input.
* Rare-Metal-Worker takes PED and DAT file in Merlin format. Please refer to the following link for specifications.
* Rare-Metal-Worker takes PED/DAT file in Merlin format. Please refer here [[http://www.sph.umich.edu/csg/abecasis/merlin/tour/input_files.html]] for details.
* DAT file must have variant names in the following format "M chr:pos". Here is an example of variant name format in DAT file:
* DAT file must have variant names in the following format "M chr:pos". Here is an example of variant name format in DAT file:
M 1:123456
M 1:123456
* '''Markers in PED and DAT file must be sorted by chromosome and position.'''
* '''Markers in PED and DAT file must be sorted by chromosome and position.'''
* Covariate and trait values are saved in PED file. Covariate and trait descriptions are saved in DAT file.
* Covariate and trait values are saved in PED file. Covariate and trait descriptions are saved in DAT file.
==== VCF File ====
==== VCF File ====
