PREDAResultsGetObservedFlags {PREDA} | R Documentation |
extract genomic positions with significant alterations as a matrix of flags from a PREDAResults object
Description
extract genomic positions with significant alterations as a matrix of flags from a PREDAResults object
Usage
# PREDAResultsGetObservedFlags(.Object, qval.threshold=0.05,
# smoothStatistic.tail=NULL, smoothStatistic.threshold=NULL,
# null.value=0, significant.value=1)
PREDAResultsGetObservedFlags(.Object, ...)
Arguments
.Object |
An object of class PREDAResults or PREDADataAndResults
|
... |
See below
- qval.threshold:
-
q-value threshold used to identify significant genomic positions
- smoothStatistic.tail:
-
Possible values are "upper" or "lower". This parameter specify
if only one tail of the smoothed statististic distribution must
be considered. If it is NULL, both tails are used and
smoothStatistic.threshold is ignored.
- smoothStatistic.threshold:
-
Threshold on smoothStatistic values to select significant
genomic regions.
- null.value:
-
Value (flag) assigned to not significant positions
- significant.value:
-
Value (flag) assigned to significant positions
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[Package
PREDA version 1.30.0
Index]