usage: impute4diallel_v1.2.py [-h] [-p [PATH]] [-d DIALLEL] [-i DSF]
[-s START] [-e END] [--header {yes,no}]
[-o OUTPUT] [-m {0,1,2,3,4}]
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impute4diallel version 1.0
Jinliang Yang
updated: Sep.12.2014
changes: 1.R codes tested for GenSel add, dom, SNPTEST output!
2.input changed to sdf5
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SNP Imputation for diallel!
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optional arguments:
-h, --help show this help message and exit
-p [PATH], --path [PATH]
the path of the input files
-d DIALLEL, --diallel DIALLEL
pedigree of the diallels (p1 p2 F1)
-i DSF, --dsf DSF path of the density SNP format file
-s START, --start START
start cols (1-based) of the genotype [defult:
--start=4]
-e END, --end END end cols (1-based) of the genotype [defult: --end=31]
--header {yes,no} print header or not [default: --header=no]
-o OUTPUT, --output OUTPUT
output files, like chr1_merged
-m {0,1,2,3,4}, --mode {0,1,2,3,4}
[default --mode=0]; 0, for GenSel; 1, for PLINK; 2,
for SNPTEST; need chr pos in the dsf file! 3, for raw;
4, for GenSel dominant model.