FlowRepositoryR: FlowRepository R Interface

This package provides an interface to search and download data and annotations from FlowRepository (flowrepository.org). It uses the FlowRepository programming interface to communicate with a FlowRepository server.

AuthorJosef Spidlen [aut, cre]
Date of publicationNone
MaintainerJosef Spidlen <jspidlen@bccrc.ca>
LicenseArtistic-2.0
Version1.6.0

View on Bioconductor

Man pages

attachmentProxy-class: 'attachmentProxy': a class representing a proxy to an...

download-methods: Download dataset files

fcsProxy-class: 'fcsProxy': a class representing a proxy to an FCS file in...

fileProxy-class: 'fileProxy': a class representing a proxy to a file in...

flowRepData-class: 'flowRepData': a class for storing metadata about a...

flowRep.get: Retrieve information about a specified FlowRepository...

flowRep.ls: List identifiers of datasets available in FlowRepository

flowRepOrganization-class: 'flowRepOrganization': a class for storing details about an...

FlowRepositoryR-package: Programming interface to access FlowRepository.org

flowRep.search: Search FlowRepository for datasets matching the query and...

flowRep.submitGeneStatus: Submit information about an IMPC gene analysis results to...

flowRep.submitImpcResults: Submit IMPC data analysis results to FlowRepository.

forgetFlowRepositoryCredentials: Forgets credentials (email and password) to login to...

getFlowRepositoryURL: Get FlowRepository URL addresss.

id-methods: Retrieve the identifier of flowRepData objects

ilarCodeDescription: Get the name of a lab from it's ILAR code

impcCodeDescription: Get a human readable description of an IMPC code.

impcResultsCopy-methods: Retrieve a copy of IMPC results associated with a flowRepData...

is.downloaded-methods: Check if a dataset or a file proxy is downloaded

listKnownIlarCodes: List all known ILAR codes.

setFlowRepositoryCredentials: Set credentials (email and password) to login to...

setFlowRepositoryURL: Set FlowRepository URL addresss.

Functions

attachmentProxy Man page
attachmentProxy-class Man page
attachments Man page
attachments<- Man page
attachments,flowRepData,attachments-method Man page
attachments<-,flowRepData-method Man page
attachments,flowRepData-method Man page
download Man page
download,attachmentProxy-method Man page
download,fcsProxy-method Man page
download,fileProxy,download-method Man page
download,fileProxy-method Man page
download,flowRepData,download-method Man page
download,flowRepData-method Man page
fcs.files Man page
fcs.files<- Man page
fcs.files,flowRepData,fcs.files-method Man page
fcs.files<-,flowRepData-method Man page
fcs.files,flowRepData-method Man page
fcsProxy Man page
fcsProxy-class Man page
fileProxy Man page
fileProxy-class Man page
flowRepData Man page
flowRepData-class Man page
flowRep.get Man page
flowRep.ls Man page
flowRepOrganization Man page
flowRepOrganization-class Man page
FlowRepositoryR Man page
FlowRepositoryR-package Man page
flowRep.search Man page
flowRep.submitGeneStatus Man page
flowRep.submitImpcResults Man page
forgetFlowRepositoryCredentials Man page
getFlowRepositoryURL Man page
id Man page
id,flowRepData,id-method Man page
id,flowRepData-method Man page
ilarCodeDescription Man page
impcCodeDescription Man page
impc.experiments Man page
impc.experiments<- Man page
impc.experiments,flowRepData,impc.experiments-method Man page
impc.experiments<-,flowRepData-method Man page
impc.experiments,flowRepData-method Man page
impcResultsCopy Man page
impcResultsCopy,flowRepData,impcResultsCopy-method Man page
impcResultsCopy,flowRepData-method Man page
is.downloaded Man page
is.downloaded,attachmentProxy-method Man page
is.downloaded,fcsProxy-method Man page
is.downloaded,fileProxy,is.downloaded-method Man page
is.downloaded,fileProxy-method Man page
is.downloaded,flowRepData,is.downloaded-method Man page
is.downloaded,flowRepData-method Man page
listKnownIlarCodes Man page
localpath Man page
localpath,fileProxy,localpath-method Man page
localpath,fileProxy-method Man page
organizations Man page
organizations,flowRepData-method Man page
organizations,flowRepData,organizations-method Man page
setFlowRepositoryCredentials Man page
setFlowRepositoryURL Man page
summary,attachmentProxy-method Man page
summary,fcsProxy-method Man page
summary,fileProxy-method Man page
summary,flowRepData-method Man page
summary,flowRepOrganization-method Man page

Files

FlowRepositoryR/DESCRIPTION
FlowRepositoryR/NAMESPACE
FlowRepositoryR/R
FlowRepositoryR/R/AllClasses.R FlowRepositoryR/R/accessor-methods.R FlowRepositoryR/R/exported-functions.R FlowRepositoryR/R/helper-functions.R FlowRepositoryR/R/methods.R FlowRepositoryR/R/parsing-methods.R FlowRepositoryR/R/settings.R FlowRepositoryR/R/summary-methods.R
FlowRepositoryR/build
FlowRepositoryR/build/vignette.rds
FlowRepositoryR/inst
FlowRepositoryR/inst/NEWS
FlowRepositoryR/inst/doc
FlowRepositoryR/inst/doc/HowTo-FlowRepositoryR.R
FlowRepositoryR/inst/doc/HowTo-FlowRepositoryR.Rnw
FlowRepositoryR/inst/doc/HowTo-FlowRepositoryR.pdf
FlowRepositoryR/inst/unitTests
FlowRepositoryR/inst/unitTests/test_downloads.R
FlowRepositoryR/inst/unitTests/test_flowRep.get.R
FlowRepositoryR/inst/unitTests/test_flowRep.ls.R
FlowRepositoryR/inst/unitTests/test_flowRep.search.R
FlowRepositoryR/inst/unitTests/test_generics.R
FlowRepositoryR/inst/unitTests/test_helpers.R
FlowRepositoryR/inst/unitTests/test_impc_dict.R
FlowRepositoryR/inst/unitTests/test_settings.R
FlowRepositoryR/man
FlowRepositoryR/man/FlowRepositoryR-package.Rd FlowRepositoryR/man/attachmentProxy-class.Rd FlowRepositoryR/man/download-methods.Rd FlowRepositoryR/man/fcsProxy-class.Rd FlowRepositoryR/man/fileProxy-class.Rd FlowRepositoryR/man/flowRep.get.Rd FlowRepositoryR/man/flowRep.ls.Rd FlowRepositoryR/man/flowRep.search.Rd FlowRepositoryR/man/flowRep.submitGeneStatus.Rd FlowRepositoryR/man/flowRep.submitImpcResults.Rd FlowRepositoryR/man/flowRepData-class.Rd FlowRepositoryR/man/flowRepOrganization-class.Rd FlowRepositoryR/man/forgetFlowRepositoryCredentials.Rd FlowRepositoryR/man/getFlowRepositoryURL.Rd FlowRepositoryR/man/id-methods.Rd FlowRepositoryR/man/ilarCodeDescription.Rd FlowRepositoryR/man/impcCodeDescription.Rd FlowRepositoryR/man/impcResultsCopy-methods.Rd FlowRepositoryR/man/is.downloaded-methods.Rd FlowRepositoryR/man/listKnownIlarCodes.Rd FlowRepositoryR/man/setFlowRepositoryCredentials.Rd FlowRepositoryR/man/setFlowRepositoryURL.Rd
FlowRepositoryR/tests
FlowRepositoryR/tests/runTests.R
FlowRepositoryR/vignettes
FlowRepositoryR/vignettes/FlowRepositorySetAPIpasswd.png
FlowRepositoryR/vignettes/HowTo-FlowRepositoryR.Rnw
FlowRepositoryR/vignettes/Refs.bib

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