[BioC] SKAT package on CRAN

[Dan Tenenbaum]

On Wed, Aug 14, 2013 at 5:05 PM, Cian Murphy <cian.murphy.11 at ucl.ac.uk> wrote:
> I'm attempting to run SKAT for the gene based tests. For the null model
> section, the code is:
>
> obj <-SKAT_Null_Model(phenotype ~ covariates_matrix, out_type="D")
>
> where phenotype is a numeric binary of 0/1 for case/control status. Does it
> matter if 0 is case or control and vice  versa?
>
> Secondly, how exactly do you get the covariates matrix? For gene based
> tests, what are the covariates? If all I have is patient ID, case/control
> status and genotype data (0/1/2 or NA), how should I set this up?
>

Since SKAT is not a Bioconductor package, it's probably best to ask
its maintainer, listed here:

packageDescription("SKAT")[['Maintainer']]

or here:

http://cran.r-project.org/web/packages/SKAT/index.html

Dan


> Thanks,
>
> Cian
>
> _______________________________________________
> Bioconductor mailing list
> Bioconductor at r-project.org
> https://stat.ethz.ch/mailman/listinfo/bioconductor
> Search the archives:
> http://news.gmane.org/gmane.science.biology.informatics.conductor