Difference between revisions of "RAREFY COMMAND"

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(Methods)
(Methods)
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===--traitDecreasing===  
 
===--traitDecreasing===  
 
[ON|OFF]: default is '''OFF'''; can be used together with '''--traitIncreasing''' options or used alone.
 
[ON|OFF]: default is '''OFF'''; can be used together with '''--traitIncreasing''' options or used alone.
 +
==Trait==
 +
===--inverseNormal===
 +
===--useCovariates===

Revision as of 19:41, 16 February 2015

Options:
  Input Files : --ped [], --dat []
      Methods : --MCMC, --traitIncreasing, --traitDecreasing
        Trait : --inverseNormal, --useCovariates, --traitName []
   Parameters : --maf [1.0e-03], --effect [1.00]
         MCMC : --seed, --chains [3], --iterations [50000000]
        Other : --famList [], --famID [], --cpus [5], --prefix []

Input Files

--ped

followed by the file name of yourMERLIN format PED file.

--dat

followed by the file name of your MERLIN format DAT file.

Methods

--MCMC

[ON|OFF]: default is OFF, but will be automatically turned on for families larger than 25 individuals.

--traitIncreasing

[ON|OFF]: default is OFF; can be used together with --traitDecreasing options or used alone.

--traitDecreasing

[ON|OFF]: default is OFF; can be used together with --traitIncreasing options or used alone.

Trait

--inverseNormal

--useCovariates