Iteratively carry out association tests with phenotypes and SNP sets in SSD file.
SKAT.SSD.All(SSD.INFO, obj, …, obj.SNPWeight=NULL)
SKATBinary.SSD.All(SSD.INFO, obj, …, obj.SNPWeight=NULL)SSD_INFO object returned from Open_SSD.
output object from SKAT_Null_Model.
further arguments to be passed to ``SKAT'' or ``SKATBinary''.
output object from Read_SNP_WeightFile (default=NULL). If NULL, the beta weight with the ``weights.beta'' parameter will be used.
dataframe that contains SetID, p-values (P.value), the number of markers in the SNP sets (N.Marker.All), and the number of markers to test for an association after excluding non-polymorphic or high missing rates markers (N.Marker.Test). The output dataframe from SKATBinary.SSD.All have more columns for the method to compute p-values and the minimum achievable p-values (MAP).
the matrix that contains p-values of resampled phenotypes.
Please see SKAT or SKATBinary for details.