annotate: Genome annotation of the "exemplars".

Description Usage Arguments Details Value Author(s) Examples

View source: R/annotate.R

Description

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

Usage

1
    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).

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

1
2
3
4
5
6
7
8
## 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")

mAPKL documentation built on Nov. 17, 2017, 1:46 p.m.