R: An annotation data object that maps Reactome pathway...
reactomePATHID2NAME
R Documentation
An annotation data object that maps Reactome pathway identifiers to
Reactome pathway names
Description
reactomePATHID2NAME maps Reactome pathway identifiers to pathway names used by
Reactome for various pathways
Details
This is an R object containing key and value pairs. Keys are
Reactome pathway identifiers and values are pathway names. Values are vectors of
length 1.
Mappings were based on data provided by: Reactome
http://www.reactome.org/download/current/sql.gz & http://www.reactome.org/download/current/sql_dn.gz
With a date stamp from the source of: 2010-Dec-21
xx <- as.list(reactomePATHID2NAME)
if(length(xx) > 0){
# get the value for the first key
xx[[1]]
# Get the 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(reactome.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
> png(filename="/home/ddbj/snapshot/RGM3/R_BC/result/reactome.db/reactomePATHID2NAME.Rd_%03d_medium.png", width=480, height=480)
> ### Name: reactomePATHID2NAME
> ### Title: An annotation data object that maps Reactome pathway identifiers
> ### to Reactome pathway names
> ### Aliases: reactomePATHID2NAME
> ### Keywords: datasets
>
> ### ** Examples
>
> xx <- as.list(reactomePATHID2NAME)
> if(length(xx) > 0){
+ # get the value for the first key
+ xx[[1]]
+ # Get the values for a few keys
+ if(length(xx) >= 3){
+ xx[1:3]
+ }
+ }
$`168276`
[1] "Homo sapiens: NS1 Mediated Effects on Host Pathways"
[2] "Homo sapiens: NS1 Mediated Effects on Host Pathways"
$`164843`
[1] "Homo sapiens: 2-LTR circle formation"
[2] "Homo sapiens: 2-LTR circle formation"
$`157279`
[1] "Homo sapiens: 3' -UTR-mediated translational regulation"
[2] "Homo sapiens: 3' -UTR-mediated translational regulation"
>
>
>
>
>
> dev.off()
null device
1
>