pique-run1
Software pipeline for performing genome wide association studies
Usage
pique-run -i
in_prefix
[-n
threads]
[-o
out_prefix]
[-k
kinship]
[-c
cov_file]
-t
transform
Options
Mandatory parameters:
-i in_prefix: input prefix for .tped .tfam and .pheno files
Optional parameters:
-n threads: number of threads. Defaults to 1
-o out_prefix: prefix for output files. Defaults to [input_prefix]
-k kinship: method used to calculate kinship matrix. Either 'IBS' (default) or 'BN' methods
-c cov_file: covariate file name
-t transform: phenotype transformation (BC = Box-Cox, default = none)
More information about pique-run usage can be found in the PIQUE documentation