gaggle: Broadcast data between R and Gaggle
Version 1.44.0

This package contains functions enabling data exchange between R and Gaggle enabled bioinformatics software, including Cytoscape, Firegoose and Gaggle Genome Browser.

Browse man pages Browse package API and functions Browse package files

AuthorPaul Shannon <pshannon@systemsbiology.org>
Bioconductor views Annotation DataImport GraphAndNetwork ThirdPartyClient Visualization
Date of publicationNone
MaintainerChristopher Bare <cbare@systemsbiology.org>
LicenseGPL version 2 or newer
Version1.44.0
URL http://gaggle.systemsbiology.net/docs/geese/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("gaggle")

Man pages

broadcast: Broadcast Data to the Gaggle
connectToGaggle: Connect to the Gaggle Boss
disconnectFromGaggle: Disconnect from the Gaggle Boss
gaggleInit: Initialize the R Goose, registering with the Gaggle
geese: What Geese (Programs) are Currently Running in the Gaggle?
getCluster: Create an R variable from Most Recently Broadcast Cluster
getJavaClassName: Get Java class name
getMatrix: Create an R matrix variable from Most Recently Broadcast...
getNameList: Create an R variable from Most Recently Broadcast NameList
getNetwork: Create an R network variable from a Broadcast Network
getSpecies: Specify the Species To Which Subsequent Data Belongs
getTargetGoose: Which Goose will Receive Broadcasts?
getTuple: Create an R variable from Most Recently Broadcast Tuple
hideGoose: Hide a Goose from View
newTuple: Manipulate the Gaggle Tuple data type
setSpecies: Specify the Species To Which Subsequent Data Belongs
setTargetGoose: Specify Which Goose will Receive Broadcasts
showGoose: Show a Goose On the Screen
testGagglePackage: Run unit tests for the Gaggle Package

Functions

addSingle Man page Source code
broadcast Man page Source code
broadcastAssociativeArray Source code
broadcastEnvironment Source code
broadcastGraph Source code
captureQuotedNumbersAsStrings Source code
connectToGaggle Man page Source code
disconnectFromGaggle Man page Source code
gaggleInit Man page Source code
gaggleNetworkToGraphNEL Source code
geese Man page Source code
getCluster Man page Source code
getEdgeType Source code
getJavaClassName Man page Source code
getMatrix Man page Source code
getNameList Man page Source code
getNetwork Man page Source code
getSpecies Man page Source code
getTargetGoose Man page Source code
getTuple Man page Source code
getTupleAsList Man page Source code
graphNELtoGaggleNetwork Source code
hideGoose Man page Source code
isJavaTuple Source code
listMember Source code
newSingle Man page Source code
newTuple Man page Source code
onLoad Source code
pkgVersion Source code
scriptVersion Source code
setSpecies Man page Source code
setTargetGoose Man page Source code
showGoose Man page Source code
testGagglePackage Man page Source code
tupleToList Man page Source code

Files

DESCRIPTION
NAMESPACE
R
R/gaggle.R
build
build/vignette.rds
inst
inst/doc
inst/doc/gaggle.R
inst/doc/gaggle.Rnw
inst/doc/gaggle.pdf
inst/jars
inst/jars/gaggleRShell.jar
inst/unitTests
inst/unitTests/gaggleTest.R
man
man/broadcast.Rd
man/connectToGaggle.Rd
man/disconnectFromGaggle.Rd
man/gaggleInit.Rd
man/geese.Rd
man/getCluster.Rd
man/getJavaClassName.Rd
man/getMatrix.Rd
man/getNameList.Rd
man/getNetwork.Rd
man/getSpecies.Rd
man/getTargetGoose.Rd
man/getTuple.Rd
man/hideGoose.Rd
man/newTuple.Rd
man/setSpecies.Rd
man/setTargetGoose.Rd
man/showGoose.Rd
man/testGagglePackage.Rd
vignettes
vignettes/SHBN.png
vignettes/cyRandomEGraph8.png
vignettes/gaggle.Rnw
vignettes/gaggleData.png
vignettes/gaggleTarget.png
vignettes/gooseSelectionMenu.png
vignettes/listening.png
gaggle documentation built on May 20, 2017, 10:49 p.m.