AnnotationFuncs-package {bioCancer} | R Documentation

## Annotation translation functions

### Description

Package: | AnnotationFuncs
Type: | Package
Version: | 1.3.0
Date: | 2011-06-10
License: | GPL-2
LazyLoad: | yes

### Details

Functions for handling translations between different identifieres using the Biocore Data Team data-packages (e.g. `org.Bt.eg.db`). Primary functions are `translate` for translating and `getOrthologs` for efficient lookup of homologes using the Inparanoid databases. Other functions include functions for selecting Refseqs or Gene Ontologies (GO).

### Author(s)

Stefan McKinnon Edwards stefan.hoj-edwards@agrsci.dk

### References

http://www.iysik.com/index.php?page=annotation-functions

### See Also

`translate`, `getOrthologs`

### Examples

    library(org.Bt.eg.db)
    gene.symbols <- c('DRBP1','SERPINA1','FAKE','BLABLA')
    # Find entrez identifiers of these genes.
    eg <- translate(gene.symbols, org.Bt.egSYMBOL2EG)
    # Note that not all symbols were translated.

    # Go directly to Refseq identifiers.
    refseq <- translate(gene.symbols, from=org.Bt.egSYMBOL2EG, to=org.Bt.egREFSEQ)
    # Pick the proteins:
     pickRefSeq(refseq, priorities=c('NP','XP'), reduce='all')

[Package bioCancer version 1.22.0 Index]