BridgeDbR: Code for using BridgeDb identifier mapping framework from within R
Version 1.10.0

Use BridgeDb functions and load identifier mapping databases in R.

AuthorChrist Leemans <christleemans@gmail.com>, Egon Willighagen <egon.willighagen@gmail.com>, Anwesha Bohler <anweshabohler@gmail.com>, Lars Eijssen <l.eijssen@maastrichtuniversity.nl>
Bioconductor views Annotation Software
Date of publicationNone
MaintainerEgon Willighagen <egon.willighagen@gmail.com>
LicenseAGPL-3
Version1.10.0
URL https://github.com/bridgedb/BridgeDb https://github.com/BiGCAT-UM/bridgedb-r
Package repositoryView on Bioconductor
InstallationInstall the latest version of this package by entering the following in R:
source("https://bioconductor.org/biocLite.R")
biocLite("BridgeDbR")

Popular man pages

fullNameExists: Determines if the full name corresponds to any known data...
getMatchingSources: Return a list of data sources of which the identifier pattern...
getOrganismCode: Return the code of a particular organism.
getSystemCode: Return the system code of a particular data source.
loadDatabase: Loads a BridgeDb identifier mapping database (.bridge file)...
registerDataSource: Registers a new DataSource based on the given name or system...
systemCodeExists: Determines if the system code corresponds to any known data...
See all...

All man pages Function index File listing

Man pages

BridgeDbR: BridgeDBR Package.
fullNameExists: Determines if the full name corresponds to any known data...
getBridgeNames: Method to list the BridgeDb identifier mapping file names as...
getDatabase: Downloads a identifier mapping database for the given...
getDataSource: Return a DataSource object based on either a name or system...
getFullName: Return the name of a particular data source.
getMatchingSources: Return a list of data sources of which the identifier pattern...
getOrganismCode: Return the code of a particular organism.
getSystemCode: Return the system code of a particular data source.
loadDatabase: Loads a BridgeDb identifier mapping database (.bridge file)...
map: Converts one identifier into other identifiers for the given...
registerDataSource: Registers a new DataSource based on the given name or system...
systemCodeExists: Determines if the system code corresponds to any known data...

Functions

BridgeDbR Man page
BridgeDbR-package Man page
fullNameExists Man page Source code
getBridgeNames Man page Source code
getDataSource Man page Source code
getDatabase Man page Source code
getFullName Man page Source code
getMatchingSources Man page Source code
getOrganismCode Man page Source code
getSystemCode Man page Source code
loadDatabase Man page Source code
map Man page Source code
onLoad Source code
registerDataSource Man page Source code
systemCodeExists Man page Source code

Files

DESCRIPTION
NAMESPACE
NEWS
R
R/bridgedb.R
R/fullNameExists.R
R/getBridgeNames.R
R/getDataSource.R
R/getDatabase.R
R/getFullName.R
R/getMatchingSources.R
R/getOrganismCode.R
R/getSystemCode.R
R/loadDatabase.R
R/map.R
R/registerDataSource.R
R/systemCodeExists.R
build
build/vignette.rds
inst
inst/doc
inst/doc/tutorial.R
inst/doc/tutorial.Rnw
inst/doc/tutorial.pdf
inst/java
inst/java/derby.jar
inst/java/org.bridgedb.bio.jar
inst/java/org.bridgedb.jar
inst/java/org.bridgedb.rdb.jar
man
man/BridgeDbR.Rd
man/fullNameExists.Rd
man/getBridgeNames.Rd
man/getDataSource.Rd
man/getDatabase.Rd
man/getFullName.Rd
man/getMatchingSources.Rd
man/getOrganismCode.Rd
man/getSystemCode.Rd
man/loadDatabase.Rd
man/map.Rd
man/registerDataSource.Rd
man/systemCodeExists.Rd
tests
tests/testthat
tests/testthat.R
tests/testthat/test-getDataSource.R
tests/testthat/test-getFullName.R
tests/testthat/test-getOrganismCode.R
tests/testthat/test-getSystemCode.R
vignettes
vignettes/tutorial.Rnw
vignettes/tutorial.bib
BridgeDbR documentation built on May 20, 2017, 9:13 p.m.

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