rPlant: Interface to the Agave API

Provides an interface to the the many computational resources iPlant offers through their RESTful application programming interface, see <http://www.iplantcollaborative.org/> for more information about iPlant, and <http://www.iplantcollaborative.org/ci/iplant-science-apis> for its APIs. Currently, 'rPlant' functions interact with the iPlant Agave API, the Taxonomic Name Resolution Service API, and the Phylotastic Taxosaurus API. Before using 'rPlant', users will have to register with the iPlant Collaborative. See <http://agaveapi.co/> for more information on the Agave API and <http://user.iplantcollaborative.org/> to register with iPlant.

AuthorBarb Banbury <darwinthesun@gmail.com> and Kurt Michels <kamichels@math.arizona.edu>, Jeremy M. Beaulieu <jeremy.beaulieu@yale.edu>, Brian O'Meara <bomeara@utk.edu>
Date of publication2016-04-03 16:38:09
MaintainerKurt Michels <kamichels@math.arizona.edu>
LicenseGPL (>= 2)
Version2.16
http://www.iplantcollaborative.org/discover/discovery-environment

View on CRAN

Files in this package

rPlant
rPlant/inst
rPlant/inst/tests
rPlant/inst/tests/ex_script.R
rPlant/inst/tests/rPlantUserManual.pdf
rPlant/inst/extdata
rPlant/inst/extdata/geno_test.tped
rPlant/inst/extdata/geno_test.tfam
rPlant/inst/extdata/DNA.fasta
rPlant/inst/extdata/PROTEIN.fasta
rPlant/NAMESPACE
rPlant/data
rPlant/data/simulation1.ped.rda
rPlant/data/phylip_interleaved_aa.aln.rda
rPlant/data/simulation1.map.rda
rPlant/data/PROTEIN.fasta.rda
rPlant/data/DNA.fasta.rda
rPlant/data/geno_test.tped.rda
rPlant/data/fasta_dna.aln.rda
rPlant/data/geno_test.tfam.rda
rPlant/data/phylip_interleaved_dna.aln.rda
rPlant/data/fasta_aa.aln.rda
rPlant/R
rPlant/R/PLINKConversion.R rPlant/R/rPlant.R rPlant/R/Fasttree.R rPlant/R/Mafft.R rPlant/R/TNRS.R rPlant/R/RAxML.R rPlant/R/Muscle.R rPlant/R/ClustalW.R rPlant/R/find.input.R rPlant/R/help.R rPlant/R/PLINK.R rPlant/R/FaST_LMM.R
rPlant/vignettes
rPlant/vignettes/rPlantVignette.pdf
rPlant/vignettes/TNRSVignette.pdf
rPlant/MD5
rPlant/DESCRIPTION
rPlant/man
rPlant/man/UploadFile.Rd rPlant/man/TNRS.Rd rPlant/man/ListDir.Rd rPlant/man/Fasttree.Rd rPlant/man/rPlant-internal.Rd rPlant/man/Validate.Rd rPlant/man/Muscle.Rd rPlant/man/SubmitJob.Rd rPlant/man/Mafft.Rd rPlant/man/rplant-package.Rd rPlant/man/GetAppList.Rd rPlant/man/ClustalW.Rd rPlant/man/FaST_LMM.Rd rPlant/man/PLINKConversion.Rd rPlant/man/PLINK.Rd rPlant/man/RAxML.Rd rPlant/man/rPlant-data.Rd

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