ChIPpeakAnno (version 3.4.0)

featureAlignedSignal: extract signals in given ranges

Description

extract signals in the given feature ranges

Usage

featureAlignedSignal(cvglists, feature.gr,  upstream, downstream,  n.tile=100, ...)

Arguments

cvglists

List of SimpleRleList or RleList

feature.gr

An object of GRanges with identical width. If the width equal to 1, you can use upstream and downstream to set the range for plot. If the width not equal to 1, you can use zeroAt to set the zero point of the heatmap.

upstream, downstream

upstream or dwonstream from the feature.gr.

n.tile

The number of tiles to generate for each element of feature.gr, default is 100

...

Not used.

Value

A list of matrix. In each matrix, each row record the signals for corresponding feature.

See Also

See Also as featureAlignedHeatmap, featureAlignedDistribution

Examples

  cvglists <- list(A=RleList(chr1=Rle(sample.int(5000, 100), 
                                      sample.int(300, 100))), 
                   B=RleList(chr1=Rle(sample.int(5000, 100), 
                                      sample.int(300, 100))))
  feature.gr <- GRanges("chr1", IRanges(seq(1, 4900, 100), width=100))
  featureAlignedSignal(cvglists, feature.gr, zeroAt=50, type="l")