Multiple testing correction within contrasts. DiffMetabolites() should be preferred to using this function directly.

Multiple testing correction within contrasts. DiffMetabolites() should be preferred to using this function directly.

Usage

pAdjustData(ebayesFit, theContrasts, contrastLevel = "Group")

Arguments

ebayesFit

The fit from FitTheData

theContrasts

Vector of contrasts specified in the format "GroupA - GroupB". The "Group" string, specified by contrastLevel is stripped.

contrastLevel

The column from the data containing contrasts levels. model.matrix adds this column name as a prefix to each group so this is passed in with the prefix to FitTheData() but can now be stripped contrast names in the result.

Value

data.frame of topTable hits with adjusted P-values and logFC