| getMethp {ICDS} | R Documentation |
getMethp
Description
'getMethp' perform t-test on Methylation profile data
Usage
getMethp(meth_data, label, p.adjust = TRUE, method = "fdr")
Arguments
meth_data |
A data frame, the Methylation profile to calculate p-value for each gene, the rownames should be the symbol of genes. |
label |
label A vector of 0/1s, indicating the class of samples in the Methylation profile, 0 represents case, 1 represents control. |
p.adjust |
Logical,tell if returns corrected p-values |
method |
Correction method,which can be one of "holm", "hochberg", "hommel", "bonferroni", "BH", "BY", |
Details
For a given Methylation profile of two conditions, ICDS package provide t-test method to calculate p-values or corrected p-values(if p.adjust=TRUE,return corrected p-values,if p.adjust=FALSE,return p-values.) for each genes. The row of the Methylation profile should be gene symbols and the column of the Methylation profile should be names of samples. Samples should be under two conditions and the label should be given as 0 and 1.
Value
A numeric vector of p-values or corrected p-values
Examples
profile<-GetExampleData("meth_data")
label<-GetExampleData("label2")
getMethp(profile,label,p.adjust=FALSE)