Description Usage Arguments Value See Also Examples
Method to compute the p-values for results from jtGWAS
.
1 | pvalues(jtGWAS.object)
|
jtGWAS.object |
A |
A matrix of p-values with the same dimensions as the standardized statistics from jtGWAS
. If jtGWAS
was run with standardized=FALSE
, returns NULL
.
1 2 3 4 5 6 7 8 9 10 11 12 13 14 | # Generate dummy data
num_patient <- 100
num_marker <- 10
num_SNP <- 500
set.seed(12345)
X_pat_mak <- matrix(rnorm(num_patient*num_marker), num_patient, num_marker)
G_pat_SNP <- matrix(rbinom(num_patient*num_SNP, 2, 0.5), num_patient, num_SNP)
colnames(X_pat_mak) <- colnames(X_pat_mak, do.NULL=FALSE, prefix="Mrk:")
colnames(G_pat_SNP) <- colnames(G_pat_SNP, do.NULL=FALSE, prefix="SNP:")
res <- jtGWAS(X_pat_mak, G_pat_SNP, outTopN=5)
pvalues(res)
res <- jtGWAS(X_pat_mak, G_pat_SNP, outTopN=NA)
pvalues(res)
|
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