getCnvp {ICDS} | R Documentation |
getCnvp
Description
'getCnvp' perform t-test on copy number variation data
Usage
getCnvp(
exp_data,
cnv_data,
amp_gene,
del_gene,
p.adjust = TRUE,
method = "fdr"
)
Arguments
exp_data |
A data frame |
cnv_data |
Copy number variation data |
amp_gene |
A vector of strings, the IDs of amplified genes. |
del_gene |
A vector of strings, the IDs of deleted genes. |
p.adjust |
Logical,tell if returns corrected p-values |
method |
Correction method,which can be one of "holm", "hochberg", "hommel", "bonferroni", "BH", "BY", |
Details
cnv_data is TCGA level4 data.if p.adjust=TRUE,return corrected p-values,if p.adjust=FALSE,return p-values
Value
A numeric vector of p-values or corrected p-values
Examples
exp_data<-GetExampleData("exp_data")
meth_data<-GetExampleData("meth_data")
cnv_data<-GetExampleData("cnv_data")
amp_gene<-GetExampleData("amp_gene")
del_gene<-GetExampleData(("del_gene"))
getCnvp(exp_data,cnv_data,amp_gene,del_gene,p.adjust=FALSE,method="fdr")
[Package ICDS version 0.1.2 Index]