Find Malignant Subset of Cells

Source: R/findMalignant.R

Find Malignant Subset of Cells according to their CNA parameters for correlation to Tumour of origin (using cnaCor()) and for the overall extent of CNA signal (the mean absolute CNA values; using cnaSignal()).

findMalignant(cna, threshold = NULL, cor.threshold = threshold,
  signal.threshold = threshold, bySample = FALSE, samples = NULL,
  sep = "-|_", mode.overlap = 0.05, excludeFromAvg = NULL,
  cor.bySampling = TRUE, signal.bySampling = TRUE, nsamples = 10000,
  ...)

Arguments

cna

a matrix of gene rows by cell columns containing CNA values.

Value

if bimodality was not found, FALSE. Else return list(nonMalignant, malignant) of column IDs.

Details

DETAILS

Examples

# NOT RUN {
if(interactive()){
 #EXAMPLE1
 }
# }