tni.dpi.filter {RTN} | R Documentation |
This function takes a TNI object and returns the transcriptional network filtered by the data processing inequality algorithm.
tni.dpi.filter(object, eps=0, verbose=TRUE)
object |
a processed object of class 'TNI' |
eps |
a single numeric value specifying the threshold under which ARACNe algorithm should apply the dpi filter (eps>=0). If not available (i.e. eps=NA), then the threshold is estimated from the empirical null distribution computed in the permutation and bootstrap steps. For additional details see |
verbose |
a single logical value specifying to display detailed messages (when verbose=TRUE) or not (when verbose=FALSE) |
a mutual information matrix in the slot "results" containing a dpi-filtered transcriptional network,
see 'tn.dpi' option in tni.get
.
Mauro Castro
data(tniData) ## Not run: # preprocessing rtni <- tni.constructor(expData=tniData$expData, regulatoryElements=c("PTTG1","E2F2","FOXM1","E2F3","RUNX2"), rowAnnotation=tniData$rowAnnotation) # permutation analysis (infers the reference/relevance network) rtni <- tni.permutation(rtni) # dpi filter (infers the transcriptional network) rtni <- tni.dpi.filter(rtni) ## End(Not run)