mAPKL (version 1.4.2)

annotate: Genome annotation of the "exemplars".

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")

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.

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).

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")