validatedSignatures {GenomicSuperSignature} | R Documentation |
Validation result in data frame
validatedSignatures( val_all, num.out = 5, scoreCutoff = NULL, swCutoff = NULL, clsizeCutoff = NULL, indexOnly = FALSE, whichPC = NULL )
val_all |
An output matrix from |
num.out |
A number of highly validated RAVs to output. Default is 5.
If any of the cutoff parameters are provided, |
scoreCutoff |
A numeric value for the minimum correlation. For multi-studies case, the default is 0.7. |
swCutoff |
A numeric value for the minimum average silhouette width. |
clsizeCutoff |
An integer value for the minimum cluster size. |
indexOnly |
A logical. Under the default (= |
whichPC |
An integer value between 1 and 8. PC number of your data to
check the validated signatures with. Under the default ( |
A subset of the input matrix, which meets the given condition.
data(miniRAVmodel) library(bcellViper) data(bcellViper) val_all <- validate(dset, miniRAVmodel) validatedSignatures(val_all, num.out = 3, scoreCutoff = 0)