metaGeneMatrix: Returns a matrix, with rows representing read counts across a specified
gene, or other features of interest.
Description
Supports parallel processing using mclapply in the 'parallel' package.
To change the number of processors, use the argument 'mc.cores'.
Usage
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.