probe.2.gene.eset {EnrichmentBrowser} | R Documentation |
Transforms expression data on probe level to gene level expression by summarizing all probes that are annotated to a particular gene.
probe.2.gene.eset( probe.eset, use.mean = TRUE )
probe.eset |
Probe expression data of class |
use.mean |
Logical. Determining, in case of multiple probes for one gene, whether a mean value is computed (use.mean=TRUE), or the probe that discriminate the most between the two sample group is kept (use.mean=FALSE). Defaults to TRUE. |
A SummarizedExperiment
on gene level.
Ludwig Geistlinger <Ludwig.Geistlinger@sph.cuny.edu>
read.eset
for reading expression data from file,
de.ana
for differential expression analysis.
# (1) reading the expression data from file exprs.file <- system.file("extdata/exprs.tab", package="EnrichmentBrowser") pdat.file <- system.file("extdata/colData.tab", package="EnrichmentBrowser") fdat.file <- system.file("extdata/rowData.tab", package="EnrichmentBrowser") probe.eset <- read.eset(exprs.file, pdat.file, fdat.file) gene.eset <- probe.2.gene.eset(probe.eset)