metaGeneMatrix: Returns a matrix, with rows representing read counts across a...

Description Usage Arguments Value Author(s)

Description

Supports parallel processing using mclapply in the 'parallel' package. To change the number of processors, use the argument 'mc.cores'.

Usage

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metaGeneMatrix(features, reads, size = 50, up = 1000, down = up,
  debug = FALSE, ...)

Arguments

features

A GRanges object representing a set of genomic coordinates.

reads

A GRanges object representing a set of mapped reads.

size

The size of the moving window.

up

Distance upstream of each f to align and histogram Default: 1 kb.

down

Distance downstream of each f to align and histogram Default: same as up.

debug

If set to TRUE, provides additional print options. Default: FALSE

...

Extra argument passed to mclapply

Value

Returns a vector representing the 'typical' signal across genes of different length.

Author(s)

Charles G. Danko and Minho Chae



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