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RAREMETALWORKER (view source)

Revision as of 13:34, 9 April 2014

727 bytes removed ,  13:34, 9 April 2014
→‎Software Options
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* Even with the presence of VCF file, PED/DAT files are still needed for covariates and phenotypes.
 
* Even with the presence of VCF file, PED/DAT files are still needed for covariates and phenotypes.
 
* Are you using PLINK file formats? Converting to VCF is easy. Use WDIST (very similar to PLINK) to make the conversion. Visit this page [https://www.cog-genomics.org/wdist/ | WDIST] to find documentation and downloads for WDIST.
 
* Are you using PLINK file formats? Converting to VCF is easy. Use WDIST (very similar to PLINK) to make the conversion. Visit this page [https://www.cog-genomics.org/wdist/ | WDIST] to find documentation and downloads for WDIST.
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=== Software Options ===
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The following options are currently available in RMW:
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Options:
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      Input Files : --ped [], --dat [], --vcf [], --dosage, --noeof
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      Output Files : --prefix [], --LDwindow [1000000], --zip, --thin,
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                    --labelHits
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        VC Options : --vcX
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    Trait Options : --makeResiduals, --inverseNormal, --traitName []
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    Model Options : --recessive, --dominant
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    Kinship Source : --kinPedigree, --kinGeno, --kinFile [], --kinSave
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  Kinship Options : --kinMaf [0.05], --kinMiss [0.05]
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      Chromosome X : --xLabel [X], --xStart [2699520], --xEnd [154931044],
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                    --maleLabel [1], --femaleLabel [2]
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        PhoneHome : --noPhoneHome, --phoneHomeThinning [100]
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Shuang Feng
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Retrieved from "http://genome.sph.umich.edu/wiki/Special:MobileDiff/10029"

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