2,004
edits
Changes
From Genome Analysis Wiki
Jump to navigationJump to search→STEP 2: Run RareMetalWorker on Individual Studies
* there are ~1000 markers included in the VCF file.
* there are ~1000 markers included in the VCF file.
* To analyze this sample accounting for hidden relatedness, an empirical kinship should be calculated.
* To analyze this sample accounting for hidden relatedness, an empirical kinship should be calculated.
* By using the following command, covariates are also adjusted and residuals inverse normalized on the fly.
* By using the following command, covariates are adjusted and residuals are inverse normalized on the fly.
$yourPath/bin/raremetalworker --ped $yourLocalPath/rmw_tutorial/inputfiles/example1.ped --dat $yourLocalPath/rmw_tutorial/inputfiles/example1.dat --vcf
$yourPath/bin/raremetalworker --ped $yourLocalPath/rmw_tutorial/inputfiles/example1.ped --dat $yourLocalPath/rmw_tutorial/inputfiles/example1.dat --vcf
