crso (version 0.1.1)

makeFilteredImList: Make filtered im list from phase 3 im list

Description

Make filtered im list from phase 3 im list

Usage

makeFilteredImList(D, Q, rm, til, filter.thresh)

Arguments

D

binary matrix of events by samples

Q

penalty matrix of events by samples

rm

matrix of rules ordered by phase one

til

im list from phase 3

filter.thresh

minimum percentage of samples assigned to each rule in rs

Value

filtered top im list

Examples

# NOT RUN {
library(crso)
data(skcm)
list2env(skcm.list,envir=globalenv())
Q <- log10(P)
rm.full <- buildRuleLibrary(D,rule.thresh = 0.05) # Rule library matrix, dimension: 60 x 71
til.p2 <- makePhaseTwoImList(D,Q,rm.full,k.max = 3,
          pool.sizes=c(60,20,20),max.stored=100,shouldPrint = FALSE)
filtered.im.list <- makeFilteredImList(D,Q,rm.full,til.p2,filter.thresh = 0.05)
# }