profileMatrix {recoup} | R Documentation |
This function fills the profile
field in the
main input
argument in recoup
function by calculating profile matrices from coverages
which will be used for plotting.
profileMatrix(input, flank, binParams, rc = NULL)
input |
an input list as in |
flank |
see the |
binParams |
see the |
rc |
fraction (0-1) of cores to use in a multicore
system. It defaults to |
Same as input with the profile
fields filled.
Panagiotis Moulos
# Load some data data("recoup_test_data",package="recoup") # Do some work testGenomeRanges <- makeGRangesFromDataFrame(df=test.genome, keep.extra.columns=TRUE) w <- width(testGenomeRanges) testGenomeRanges <- promoters(testGenomeRanges,upstream=2000,downstream=0) testGenomeRanges <- resize(testGenomeRanges,width=w+4000) test.input <- coverageRef( test.input, mainRanges=testGenomeRanges ) test.input <- profileMatrix( test.input, flank=c(2000,2000), binParams=list(flankBinSize=50,regionBinSize=150, sumStat="mean",interpolation="auto"), rc=0.1 )