pvalHistogram {AgiMicroRna} | R Documentation |
Creates an histogram of the pvalues. For multiple contrats, creates an histogram for every t.test pvalue (separate) or a single histogram for the F.test pvalue (nestedF). A uniform histogram will indicate no differential expression in the data set, whereas a right skewed histogram, will indicate some significant differential expression
pvalHistogram(fit2, DE, PVcut, DEmethod, MTestmethod, CM,verbose=FALSE)
fit2 |
MArrayLM object |
DE |
TestResults object |
PVcut |
limit p value to declare significant features |
DEmethod |
method for decideTests, only 'separate' or 'nestedF' are implemented |
MTestmethod |
method for multiple test |
CM |
contrast matrix |
verbose |
logical, if |
Pedro Lopez-Romero
An overview of miRNA differential expression analysis is given in
basicLimma
An example of how to get the 'TestResults' object is in
getDecideTests
## Not run: pvalHistogram(fit2,DE,PVcut=0.10, DEmethod="separate",MTestmethod="BH",CM) ## End(Not run)