AnnotationFuncs: Annotation translation functions
In kmezhoud/bioCancer: Interactive Multi-Omics Cancers Data Visualization and Analysis
AnnotationFuncs 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
https://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')
kmezhoud/bioCancer documentation built on Feb. 17, 2024, 10:29 a.m.
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| AnnotationFuncs | 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
https://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')
R Package Documentation
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Note that we can't provide technical support on individual packages. You should contact the package authors for that.
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