annotate: Genome annotation of the "exemplars".

In asakellariou/git-git.bioconductor.org-packages-mAPKL: A Hybrid Feature Selection method for gene expression data

Description

The user may extract several genome specific information for the "exemplars" as described in the microarray annotation file.

Usage

    annotate(exemplars,chip)

Arguments

exemplars	The "exemplars" of the mAPKL class.
chip	The platforms's name of the microarray chip used (e.g. "hgu133plus2.db")

Details

This function uses as key the probe id and returns the mathing information as described in the gene chip annotation file. The returned information are ussually multiple to the number of probe ids (one to many relationship) and are stored in the results. In the rest items only the first of the returned values are stored.

Value

results	The accumulated annotation results.
probe	The probe id.
symbol	The official gene symbol.
entrezId	The Entrez gene Identifier.
ensemblId	The ensembl ID as indicated by ensembl.
map	The cytoband locations of the gene.

Author(s)

Argiris Sakellariou

Examples

## We use the "exemplars" from the mAPKL.Rd example

exemplrs <- c(24, 26, 42, 45, 63, 81, 95, 99, 102, 113, 134, 135, 145, 152, 168)
names(exemplrs)<- c("215717_s_at", "1561358_at", "222752_s_at", "233922_at",
"218871_x_at", "33323_r_at", "244311_at", "220932_at", "205508_at", "209596_at",
"215180_at", "1560638_a_at", "201852_x_at", "229947_at", "221731_x_at")

gene.info <- annotate(exemplrs,"hgu133plus2.db")

asakellariou/git-git.bioconductor.org-packages-mAPKL documentation built on June 5, 2019, 8:49 p.m.