seqSAIGE_LoadPval {SAIGEgds} | R Documentation |
Load the association results from an RData or GDS file.
seqSAIGE_LoadPval(fn, varnm=NULL, index=NULL, verbose=TRUE)
fn |
RData or GDS file names, merging datasets if multiple files |
varnm |
NULL, or a character vector to include the column names; e.g.,
|
index |
NULL, or a logical/numeric vector for a set of rows |
verbose |
if |
Return a data.frame
including p-values.
Xiuwen Zheng
seqFitNullGLMM_SPA
, seqAssocGLMM_SPA
(fn <- system.file("unitTests", "saige_pval.rda", package="SAIGEgds")) pval <- seqSAIGE_LoadPval(fn) names(pval) # [1] "id" "chr" "pos" "rs.id" "ref" # [6] "alt" "AF.alt" "AC.alt" "num" "beta" # [11] "SE" "pval" "pval.noadj" "converged" head(pval)