RGalaxy: Make an R function available in the Galaxy web platform

Given an R function and its manual page, make the documented function available in Galaxy.

Author
Dan Tenenbaum
Date of publication
None
Maintainer
Bioconductor Package Maintainer <maintainer@bioconductor.org>
License
Artistic-2.0
Version
1.18.0

View on Bioconductor

Man pages

addTwoNumbers
Add two numbers
addTwoNumbersWithTest
Add two numbers (with functional test)
anotherTestFunction
Add two matrices
foo
a foo function
functionToGalaxify
Add two matrices
galaxy
Make a function available in Galaxy
GalaxyClasses
Galaxy Parameter Classes
GalaxyConfig-class
Class '"GalaxyConfig"'
GalaxyInputFile-class
Class '"GalaxyInputFile"'
GalaxyOutput-class
Class '"GalaxyOutput"'
getFriendlyName
Change a camelCase name to a friendlier version
probeLookup
Get the PFAM and SYMBOL names for a set of Affymetrix probe...
RserveConnection-class
Class '"RserveConnection"'
runFunctionalTest
Run the functional test associated with a function.
testFunctionWithGalaxySelectParam
A variation on functionToGalaxify that takes a...
testFunctionWithSelect
A variation on functionToGalaxify that takes a...
utilities
Sends informational, warning, and error messages to the user.

Files in this package

RGalaxy/DESCRIPTION
RGalaxy/NAMESPACE
RGalaxy/R
RGalaxy/R/AllClasses.R
RGalaxy/R/galaxy.R
RGalaxy/R/man.R
RGalaxy/R/test_functions.R
RGalaxy/R/utils.R
RGalaxy/build
RGalaxy/build/vignette.rds
RGalaxy/inst
RGalaxy/inst/Rserve
RGalaxy/inst/Rserve/Rserv.conf
RGalaxy/inst/doc
RGalaxy/inst/doc/RGalaxy-vignette.R
RGalaxy/inst/doc/RGalaxy-vignette.Rmd
RGalaxy/inst/doc/RGalaxy-vignette.html
RGalaxy/inst/extdata
RGalaxy/inst/extdata/a.tsv
RGalaxy/inst/extdata/b.tsv
RGalaxy/inst/extdata/foo.Rd
RGalaxy/inst/extdata/functionToGalaxify2.R
RGalaxy/inst/extdata/functionToGalaxify2.Rd
RGalaxy/inst/functionalTests
RGalaxy/inst/functionalTests/addTwoNumbersWithTest
RGalaxy/inst/functionalTests/addTwoNumbersWithTest/sum
RGalaxy/inst/functionalTests/functionToGalaxify
RGalaxy/inst/functionalTests/functionToGalaxify/inputfile1
RGalaxy/inst/functionalTests/functionToGalaxify/inputfile2
RGalaxy/inst/functionalTests/functionToGalaxify/outputfile1
RGalaxy/inst/functionalTests/functionToGalaxify/outputfile2
RGalaxy/inst/functionalTests/probeLookup
RGalaxy/inst/functionalTests/probeLookup/outputfile
RGalaxy/inst/galaxy
RGalaxy/inst/galaxy/datatypes_conf.xml
RGalaxy/inst/galaxy/tool_conf.xml
RGalaxy/inst/samplePkg
RGalaxy/inst/samplePkg/DESCRIPTION
RGalaxy/inst/samplePkg/NAMESPACE
RGalaxy/inst/samplePkg/R
RGalaxy/inst/samplePkg/R/functions.R
RGalaxy/inst/samplePkg/man
RGalaxy/inst/samplePkg/man/testCheckboxes.Rd
RGalaxy/inst/samplePkg/man/testMissingParams.Rd
RGalaxy/inst/samplePkg/man/testRequiredOption.Rd
RGalaxy/inst/template
RGalaxy/inst/template/template.R
RGalaxy/inst/unitTests
RGalaxy/inst/unitTests/test_galaxy.R
RGalaxy/man
RGalaxy/man/GalaxyClasses.Rd
RGalaxy/man/GalaxyConfig-class.Rd
RGalaxy/man/GalaxyInputFile-class.Rd
RGalaxy/man/GalaxyOutput-class.Rd
RGalaxy/man/RserveConnection-class.Rd
RGalaxy/man/addTwoNumbers.Rd
RGalaxy/man/addTwoNumbersWithTest.Rd
RGalaxy/man/anotherTestFunction.Rd
RGalaxy/man/foo.Rd
RGalaxy/man/functionToGalaxify.Rd
RGalaxy/man/galaxy.Rd
RGalaxy/man/getFriendlyName.Rd
RGalaxy/man/probeLookup.Rd
RGalaxy/man/runFunctionalTest.Rd
RGalaxy/man/testFunctionWithGalaxySelectParam.Rd
RGalaxy/man/testFunctionWithSelect.Rd
RGalaxy/man/utilities.Rd
RGalaxy/tests
RGalaxy/tests/runTests.R
RGalaxy/vignettes
RGalaxy/vignettes/RGalaxy-vignette.Rmd
RGalaxy/vignettes/RGalaxy.css
RGalaxy/vignettes/addTwoNumbers.jpg
RGalaxy/vignettes/addTwoNumbers_result.jpg
RGalaxy/vignettes/tools
RGalaxy/vignettes/tools/mytool
RGalaxy/vignettes/tools/mytool/addTwoNumbers.R
RGalaxy/vignettes/tools/mytool/addTwoNumbers.xml
RGalaxy/vignettes/tools/mytool/functionToGalaxify.R
RGalaxy/vignettes/tools/mytool/functionToGalaxify.xml