expressedGenes {groHMM} | R Documentation |
Supports parallel processing using mclapply in the 'parallel' package. To change the number of processors use the argument 'mc.cores'.
expressedGenes(features, reads, Lambda = NULL, UnMap = NULL, debug = FALSE, ...)
features |
A GRanges object representing a set of genomic coordinates. The meta-plot will be centered on the start position. There can be optional "ID" column for gene ids. |
reads |
A GRanges object representing a set of mapped reads. |
Lambda |
Measurement of assay noise. Default: 0.04 reads/ kb in a library of 10,751,533 mapped reads. (background computed in Core, Waterfall, Lis. (2008) Science.). |
UnMap |
List object representing the position of un-mappable reads. Default: not used. |
debug |
If set to true, returns the number of positions. Default: FALSE. |
... |
Extra argument passed to mclapply |
Returns a data.frame representing the expression p.values for features of interest.
Charles G. Danko