R: An annotation data object that maps Enzyme Commission numbers...
KEGGENZYMEID2GO
R Documentation
An annotation data object that maps Enzyme Commission numbers to
Gene Ontology identifiers
Description
KEGGENZYMEID2GO maps Enzyme Commission numbers to Gene Ontoloty
(GO) identifiers
Details
This is an R object containing key and value pairs. Keys are
Enzyme Commission numbers and values are GO identifiers. Values are vectors of
length 1. Enzyme Commission numbers that can not be mapped to a GO
term are assigned a value NA.
Mappings were based on data provided by: Gene Ontology External Link
http://www.geneontology.org/external2go
With a date stamp from the source of: 2015-Sepec2go27
AnnotationDb-class for use of
the select() interface.
Examples
## select() interface:
## Objects in this package can be accessed using the select() interface
## from the AnnotationDbi package. See ?select for details.
## Bimap interface:
xx <- as.list(KEGGENZYMEID2GO)
if(length(xx) > 0){
# Get the value of the first key
xx[[1]]
# Get values for a few keys
if(length(xx) >= 3)
xx[1:3]
}
Results
R version 3.3.1 (2016-06-21) -- "Bug in Your Hair"
Copyright (C) 2016 The R Foundation for Statistical Computing
Platform: x86_64-pc-linux-gnu (64-bit)
R is free software and comes with ABSOLUTELY NO WARRANTY.
You are welcome to redistribute it under certain conditions.
Type 'license()' or 'licence()' for distribution details.
R is a collaborative project with many contributors.
Type 'contributors()' for more information and
'citation()' on how to cite R or R packages in publications.
Type 'demo()' for some demos, 'help()' for on-line help, or
'help.start()' for an HTML browser interface to help.
Type 'q()' to quit R.
> library(KEGG.db)
Loading required package: AnnotationDbi
Loading required package: stats4
Loading required package: BiocGenerics
Loading required package: parallel
Attaching package: 'BiocGenerics'
The following objects are masked from 'package:parallel':
clusterApply, clusterApplyLB, clusterCall, clusterEvalQ,
clusterExport, clusterMap, parApply, parCapply, parLapply,
parLapplyLB, parRapply, parSapply, parSapplyLB
The following objects are masked from 'package:stats':
IQR, mad, xtabs
The following objects are masked from 'package:base':
Filter, Find, Map, Position, Reduce, anyDuplicated, append,
as.data.frame, cbind, colnames, do.call, duplicated, eval, evalq,
get, grep, grepl, intersect, is.unsorted, lapply, lengths, mapply,
match, mget, order, paste, pmax, pmax.int, pmin, pmin.int, rank,
rbind, rownames, sapply, setdiff, sort, table, tapply, union,
unique, unsplit
Loading required package: Biobase
Welcome to Bioconductor
Vignettes contain introductory material; view with
'browseVignettes()'. To cite Bioconductor, see
'citation("Biobase")', and for packages 'citation("pkgname")'.
Loading required package: IRanges
Loading required package: S4Vectors
Attaching package: 'S4Vectors'
The following objects are masked from 'package:base':
colMeans, colSums, expand.grid, rowMeans, rowSums
KEGG.db contains mappings based on older data because the original
resource was removed from the the public domain before the most
recent update was produced. This package should now be considered
deprecated and future versions of Bioconductor may not have it
available. Users who want more current data are encouraged to look
at the KEGGREST or reactome.db packages
> png(filename="/home/ddbj/snapshot/RGM3/R_BC/result/KEGG.db/KEGGENZYMEID2GO.Rd_%03d_medium.png", width=480, height=480)
> ### Name: KEGGENZYMEID2GO
> ### Title: An annotation data object that maps Enzyme Commission numbers to
> ### Gene Ontology identifiers
> ### Aliases: KEGGENZYMEID2GO
> ### Keywords: datasets
>
> ### ** Examples
>
> ## select() interface:
> ## Objects in this package can be accessed using the select() interface
> ## from the AnnotationDbi package. See ?select for details.
>
> ## Bimap interface:
> xx <- as.list(KEGGENZYMEID2GO)
> if(length(xx) > 0){
+ # Get the value of the first key
+ xx[[1]]
+ # Get values for a few keys
+ if(length(xx) >= 3)
+ xx[1:3]
+ }
$`EC:1`
[1] "GO:0016491"
$`EC:1.-.-.-`
[1] "GO:0008748" "GO:0043738" "GO:0043826" "GO:0043883" "GO:0043914"
[6] "GO:0052693"
$`EC:1.1`
[1] "GO:0016614"
>
>
>
>
>
> dev.off()
null device
1
>