dexus.parallel: A parallel version of DEXUS.

In dexus: DEXUS - Identifying Differential Expression in RNA-Seq Studies with Unknown Conditions or without Replicates

Description

Speeds up DEXUS by using multiple processors. Uses the parallel package to parallelize a DEXUS call.

Usage

  dexus.parallel(X, ncores = 2, normalization = "RLE",
    ignoreIfAllCountsSmaller = 1, resultObject = "S4", ...)

Arguments

X	Either a vector of counts or a raw data matrix, where columns are interpreted as samples and rows as genomic regions.
ncores	The number of cores (CPUs) that will be used by the parallelization.
normalization	Normalization method to be used. (Default="RLE")
ignoreIfAllCountsSmaller	A transcript is considered as not expressed if all counts are smaller than the given value. (Default=1)
resultObject	Type of the result object; can either be a list ("list") or an instance of "DEXUSResult" ("S4"). (Default="S4").
...	Other options to be passed to dexus().

Value

"list"

Author(s)

Guenter Klambauer [e-mail] and Thomas Unterthiner [e-mail]

Examples

data(dexus)
result <- dexus.parallel(countsPickrell[1:10, ],ncores=1)

dexus documentation built on Nov. 8, 2020, 11:08 p.m.