rPlant: R interface to the Agave and Foundation API

rPlant is an R interface to the the many computational resources iPlant offers through their RESTful application programming interface. Currently, rPlant functions interact with the iPlant foundational API, the Taxonomic Name Resolution Service API, and the Phylotastic Taxosaurus API. Before using rPlant, users will have to register with the iPlant Collaborative.

AuthorBarb Banbury <bbanbury@utk.edu>, Kurt Michels <kamichels@math.arizona.edu>, Jeremy M. Beaulieu <jeremy.beaulieu@yale.edu>, Brian O'Meara <bomeara@utk.edu>
Date of publication2015-09-03 03:23:47
MaintainerKurt Michels <kamichels@math.arizona.edu>
LicenseGPL (>= 2)
Version2.11
http://www.iplantcollaborative.org/discover/discovery-environment

View on R-Forge

Functions

appINFO Man page
Check Man page
CheckJobStatus Man page
clustal Man page
Clustal Man page
ClustalW Man page
CompareNames Man page
CopyDir Man page
CopyFile Man page
DeleteDir Man page
DeleteFile Man page
DeleteJob Man page
DNA.fasta Man page
Error Man page
FaST_LMM Man page
fasttree Man page
Fasttree Man page
FastTree Man page
find.input Man page
geno_test.tfam Man page
geno_test.tped Man page
GetAppInfo Man page
GetJobHistory Man page
GetPhylotasticToken Man page
KillJob Man page
ListApps Man page
ListDir Man page
ListJobOutput Man page
Mafft Man page
MakeDir Man page
MoveDir Man page
MoveFile Man page
Muscle Man page
PermissionsDir Man page
PermissionsFile Man page
PHYLIP_Pars Man page
PLINK Man page
PLINKConversion Man page
PROTEIN.fasta Man page
raxml Man page
Raxml Man page
RAxML Man page
RAXML Man page
RenameDir Man page
RenameFile Man page
Renew Man page
RenewToken Man page
ResolveNames Man page
RetrieveJob Man page
RetrieveTNRSNames Man page
rplant Man page
rPlant Man page
rplant-package Man page
ShareDir Man page
ShareFile Man page
SubmitJob Man page
SupportFile Man page
TestApp Man page
Time Man page
TNRS Man page
UploadFile Man page
Validate Man page
Wait Man page

Files

rPlant/DESCRIPTION
rPlant/NAMESPACE
rPlant/R
rPlant/R/ClustalW.R rPlant/R/FaST_LMM.R rPlant/R/Fasttree.R rPlant/R/Mafft.R rPlant/R/Muscle.R rPlant/R/PHYLIP_Pars.R rPlant/R/PLINK.R rPlant/R/PLINKConversion.R rPlant/R/RAxML.R rPlant/R/TNRS.R rPlant/R/find.input.R rPlant/R/rPlant.R
rPlant/data
rPlant/data/DNA.fasta.rda
rPlant/data/PROTEIN.fasta.rda
rPlant/data/geno_test.tfam.rda
rPlant/data/geno_test.tped.rda
rPlant/inst
rPlant/inst/doc
rPlant/inst/doc/TNRSVignette.Rnw
rPlant/inst/doc/TNRSVignette.pdf
rPlant/inst/doc/jasa.bst
rPlant/inst/doc/rPlantVignette.Rnw
rPlant/inst/doc/rPlantVignette.pdf
rPlant/inst/doc/rPlantVignette_old.Rnw
rPlant/inst/doc/refs.bib
rPlant/inst/extdata
rPlant/inst/extdata/DNA.fasta
rPlant/inst/extdata/PROTEIN.fasta
rPlant/inst/extdata/geno_test.tfam
rPlant/inst/extdata/geno_test.tped
rPlant/inst/tests
rPlant/inst/tests/ex_script.R
rPlant/inst/tests/rPlantUserManual.pdf
rPlant/man
rPlant/man/ClustalW.Rd rPlant/man/FaST_LMM.Rd rPlant/man/Fasttree.Rd rPlant/man/GetAppList.Rd rPlant/man/ListDir.Rd rPlant/man/Mafft.Rd rPlant/man/Muscle.Rd rPlant/man/PHYLIP_Pars.Rd rPlant/man/PLINK.Rd rPlant/man/PLINKConversion.Rd rPlant/man/RAxML.Rd rPlant/man/SubmitJob.Rd rPlant/man/TNRS.Rd rPlant/man/UploadFile.Rd rPlant/man/Validate.Rd rPlant/man/rPlant-data.Rd rPlant/man/rPlant-internal.Rd rPlant/man/rplant-package.Rd

Questions? Problems? Suggestions? or email at ian@mutexlabs.com.

Please suggest features or report bugs with the GitHub issue tracker.

All documentation is copyright its authors; we didn't write any of that.