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prompt> $PATH/bin/raremetalworker --ped yourInput.ped --dat yourInput.dat --vcf yourInput.vcf.gz --traitName BMI --prefix yourFavoritePrefix
prompt> $PATH/bin/raremetalworker --ped yourInput.ped --dat yourInput.dat --vcf yourInput.vcf.gz --traitName BMI --prefix yourFavoritePrefix
* If you want to inverse normalize (quantile normalize) your trait before doing associations, this can be done by adding --inverseNormal to your command line:
prompt> $PATH/bin/raremetalworker --ped yourInput.ped --dat yourInput.dat --vcf yourInput.vcf.gz --traitName BMI --prefix yourFavoritePrefix --inverseNormal
* The following command will adjust covariates first and then use residuals to proceed association:
prompt> $PATH/bin/raremetalworker --ped yourInput.ped --dat yourInput.dat --vcf yourInput.vcf.gz --traitName BMI --prefix yourFavoritePrefix --makeResiduals
* The following command will adjust covariates first and then use the inverse normalized residuals to proceed association:
prompt> $PATH/bin/raremetalworker --ped yourInput.ped --dat yourInput.dat --vcf yourInput.vcf.gz --traitName BMI --prefix yourFavoritePrefix --makeResiduals --inverseNormal
=== Related individuals ===
=== Related individuals ===
