segs2RleDataFrame: CBS segments to probe matrix

In genoset: A RangedSummarizedExperiment with methods for copy number analysis

Description

Given segments, make an RleDataFrame of Rle objects for each sample

Usage

segs2RleDataFrame(seg.list, locs)

Arguments

seg.list	list, list of data frames, one per sample, each is result from CBS
locs	rowRanges from a GenoSet object

Details

Take table of segments from CBS, convert DataFrame of Rle objects for each sample.

Value

RleDataFrame with nrows same as locs and one column for each sample

See Also

Other 'segmented data': bounds2Rle, rangeSegMeanLength, runCBS, segPairTable, segTable, segs2Granges, segs2Rle

Examples

  data(genoset,package='genoset')
  seg.list = runCBS( genoset.ds[, , 'lrr'], rowRanges(genoset.ds), return.segs=TRUE )
  segs2RleDataFrame( seg.list, rowRanges(genoset.ds) )  # Loop segs2Rle on list of data.frames in seg.list

genoset documentation built on Nov. 8, 2020, 6:07 p.m.