dxR is an R extension containing API wrapper functions for interacting with the new DNAnexus platform.

Help topics

• DXGTable-class
  GenomicTable (GTable) Handler
• analysisAddTags
  analysisAddTags API wrapper
• analysisDescribe
  analysisDescribe API wrapper
• analysisRemoveTags
  analysisRemoveTags API wrapper
• analysisSetProperties
  analysisSetProperties API wrapper
• analysisTerminate
  analysisTerminate API wrapper
• appAddAuthorizedUsers
  appAddAuthorizedUsers API wrapper
• appAddCategories
  appAddCategories API wrapper
• appAddDevelopers
  appAddDevelopers API wrapper
• appAddTags
  appAddTags API wrapper
• appDelete
  appDelete API wrapper
• appDescribe
  appDescribe API wrapper
• appGet
  appGet API wrapper
• appInstall
  appInstall API wrapper
• appListAuthorizedUsers
  appListAuthorizedUsers API wrapper
• appListCategories
  appListCategories API wrapper
• appListDevelopers
  appListDevelopers API wrapper
• appNew
  appNew API wrapper
• appPublish
  appPublish API wrapper
• appRemoveAuthorizedUsers
  appRemoveAuthorizedUsers API wrapper
• appRemoveCategories
  appRemoveCategories API wrapper
• appRemoveDevelopers
  appRemoveDevelopers API wrapper
• appRemoveTags
  appRemoveTags API wrapper
• appRun
  appRun API wrapper
• appUninstall
  appUninstall API wrapper
• appUpdate
  appUpdate API wrapper
• appValidateBatch
  appValidateBatch API wrapper
• appletAddTags
  appletAddTags API wrapper
• appletDescribe
  appletDescribe API wrapper
• appletGet
  appletGet API wrapper
• appletGetDetails
  appletGetDetails API wrapper
• appletListProjects
  appletListProjects API wrapper
• appletNew
  appletNew API wrapper
• appletRemoveTags
  appletRemoveTags API wrapper
• appletRename
  appletRename API wrapper
• appletRun
  appletRun API wrapper
• appletSetProperties
  appletSetProperties API wrapper
• appletValidateBatch
  appletValidateBatch API wrapper
• closeObj(closeObj,DXGTable-method)
  Close a GTable
• containerClone
  containerClone API wrapper
• containerDescribe
  containerDescribe API wrapper
• containerDestroy
  containerDestroy API wrapper
• containerListFolder
  containerListFolder API wrapper
• containerMove
  containerMove API wrapper
• containerNewFolder
  containerNewFolder API wrapper
• containerRemoveFolder
  containerRemoveFolder API wrapper
• containerRemoveObjects
  containerRemoveObjects API wrapper
• containerRenameFolder
  containerRenameFolder API wrapper
• databaseAddTags
  databaseAddTags API wrapper
• databaseAddTypes
  databaseAddTypes API wrapper
• databaseClose
  databaseClose API wrapper
• databaseDescribe
  databaseDescribe API wrapper
• databaseDownloadFile
  databaseDownloadFile API wrapper
• databaseGetDetails
  databaseGetDetails API wrapper
• databaseListFolder
  databaseListFolder API wrapper
• databaseListProjects
  databaseListProjects API wrapper
• databaseRelocate
  databaseRelocate API wrapper
• databaseRemoveTags
  databaseRemoveTags API wrapper
• databaseRemoveTypes
  databaseRemoveTypes API wrapper
• databaseRename
  databaseRename API wrapper
• databaseSetDetails
  databaseSetDetails API wrapper
• databaseSetProperties
  databaseSetProperties API wrapper
• databaseSetVisibility
  databaseSetVisibility API wrapper
• dbclusterAddTags
  dbclusterAddTags API wrapper
• dbclusterAddTypes
  dbclusterAddTypes API wrapper
• dbclusterDescribe
  dbclusterDescribe API wrapper
• dbclusterGetDetails
  dbclusterGetDetails API wrapper
• dbclusterNew
  dbclusterNew API wrapper
• dbclusterRemoveTags
  dbclusterRemoveTags API wrapper
• dbclusterRemoveTypes
  dbclusterRemoveTypes API wrapper
• dbclusterRename
  dbclusterRename API wrapper
• dbclusterSetDetails
  dbclusterSetDetails API wrapper
• dbclusterSetProperties
  dbclusterSetProperties API wrapper
• dbclusterSetVisibility
  dbclusterSetVisibility API wrapper
• dbclusterStart
  dbclusterStart API wrapper
• dbclusterStop
  dbclusterStop API wrapper
• dbclusterTerminate
  dbclusterTerminate API wrapper
• desc(desc,DXGTable-method)
  Get the cached describe from a DNAnexus handler
• desc<-(desc<-,DXGTable-method)
  Set the cached description for the data object
• describe(describe,DXGTable-method)
  Describe the Data Object
• dxHTTPRequest
  Make HTTP Request to DNAnexus API Server
• dxR-package(dxR)
  DNAnexus R Client Library
• fileAddTags
  fileAddTags API wrapper
• fileAddTypes
  fileAddTypes API wrapper
• fileClose
  fileClose API wrapper
• fileDescribe
  fileDescribe API wrapper
• fileDownload
  fileDownload API wrapper
• fileGetDetails
  fileGetDetails API wrapper
• fileListProjects
  fileListProjects API wrapper
• fileNew
  fileNew API wrapper
• fileRemoveTags
  fileRemoveTags API wrapper
• fileRemoveTypes
  fileRemoveTypes API wrapper
• fileRename
  fileRename API wrapper
• fileSetDetails
  fileSetDetails API wrapper
• fileSetProperties
  fileSetProperties API wrapper
• fileSetVisibility
  fileSetVisibility API wrapper
• fileUpload
  fileUpload API wrapper
• globalWorkflowAddAuthorizedUsers
  globalWorkflowAddAuthorizedUsers API wrapper
• globalWorkflowAddCategories
  globalWorkflowAddCategories API wrapper
• globalWorkflowAddDevelopers
  globalWorkflowAddDevelopers API wrapper
• globalWorkflowAddTags
  globalWorkflowAddTags API wrapper
• globalWorkflowDelete
  globalWorkflowDelete API wrapper
• globalWorkflowDescribe
  globalWorkflowDescribe API wrapper
• globalWorkflowListAuthorizedUsers
  globalWorkflowListAuthorizedUsers API wrapper
• globalWorkflowListCategories
  globalWorkflowListCategories API wrapper
• globalWorkflowListDevelopers
  globalWorkflowListDevelopers API wrapper
• globalWorkflowNew
  globalWorkflowNew API wrapper
• globalWorkflowPublish
  globalWorkflowPublish API wrapper
• globalWorkflowRemoveAuthorizedUsers
  globalWorkflowRemoveAuthorizedUsers API wrapper
• globalWorkflowRemoveCategories
  globalWorkflowRemoveCategories API wrapper
• globalWorkflowRemoveDevelopers
  globalWorkflowRemoveDevelopers API wrapper
• globalWorkflowRemoveTags
  globalWorkflowRemoveTags API wrapper
• globalWorkflowRun
  globalWorkflowRun API wrapper
• globalWorkflowUpdate
  globalWorkflowUpdate API wrapper
• head(head,DXGTable-method)
  Get the First Part of a GTable
• id(id,DXGTable-method)
  Get the ID from a DNAnexus handler
• jobAddTags
  jobAddTags API wrapper
• jobDescribe
  jobDescribe API wrapper
• jobGetIdentityToken
  jobGetIdentityToken API wrapper
• jobGetLog
  jobGetLog API wrapper
• jobNew
  jobNew API wrapper
• jobRemoveTags
  jobRemoveTags API wrapper
• jobSetProperties
  jobSetProperties API wrapper
• jobTerminate
  jobTerminate API wrapper
• jobUpdate
  jobUpdate API wrapper
• loadFromEnvironment
  (Re)Load DNAnexus Configuration Values
• notificationsGet
  notificationsGet API wrapper
• notificationsMarkRead
  notificationsMarkRead API wrapper
• orgDescribe
  orgDescribe API wrapper
• orgFindApps
  orgFindApps API wrapper
• orgFindMembers
  orgFindMembers API wrapper
• orgFindProjects
  orgFindProjects API wrapper
• orgInvite
  orgInvite API wrapper
• orgNew
  orgNew API wrapper
• orgRemoveMember
  orgRemoveMember API wrapper
• orgSetMemberAccess
  orgSetMemberAccess API wrapper
• orgUpdate
  orgUpdate API wrapper
• printenv
  Print DNAnexus Configuration Values
• projectAddTags
  projectAddTags API wrapper
• projectArchive
  projectArchive API wrapper
• projectClone
  projectClone API wrapper
• projectDecreasePermissions
  projectDecreasePermissions API wrapper
• projectDescribe
  projectDescribe API wrapper
• projectDestroy
  projectDestroy API wrapper
• projectInvite
  projectInvite API wrapper
• projectLeave
  projectLeave API wrapper
• projectListFolder
  projectListFolder API wrapper
• projectMove
  projectMove API wrapper
• projectNew
  projectNew API wrapper
• projectNewFolder
  projectNewFolder API wrapper
• projectRemoveFolder
  projectRemoveFolder API wrapper
• projectRemoveObjects
  projectRemoveObjects API wrapper
• projectRemoveTags
  projectRemoveTags API wrapper
• projectRenameFolder
  projectRenameFolder API wrapper
• projectSetProperties
  projectSetProperties API wrapper
• projectTransfer
  projectTransfer API wrapper
• projectUnarchive
  projectUnarchive API wrapper
• projectUpdate
  projectUpdate API wrapper
• projectUpdateSponsorship
  projectUpdateSponsorship API wrapper
• recordAddTags
  recordAddTags API wrapper
• recordAddTypes
  recordAddTypes API wrapper
• recordClose
  recordClose API wrapper
• recordDescribe
  recordDescribe API wrapper
• recordGetDetails
  recordGetDetails API wrapper
• recordListProjects
  recordListProjects API wrapper
• recordNew
  recordNew API wrapper
• recordRemoveTags
  recordRemoveTags API wrapper
• recordRemoveTypes
  recordRemoveTypes API wrapper
• recordRename
  recordRename API wrapper
• recordSetDetails
  recordSetDetails API wrapper
• recordSetProperties
  recordSetProperties API wrapper
• recordSetVisibility
  recordSetVisibility API wrapper
• systemDescribeDataObjects
  systemDescribeDataObjects API wrapper
• systemDescribeExecutions
  systemDescribeExecutions API wrapper
• systemDescribeProjects
  systemDescribeProjects API wrapper
• systemFindAffiliates
  systemFindAffiliates API wrapper
• systemFindAnalyses
  systemFindAnalyses API wrapper
• systemFindApps
  systemFindApps API wrapper
• systemFindDataObjects
  systemFindDataObjects API wrapper
• systemFindDatabases
  systemFindDatabases API wrapper
• systemFindExecutions
  systemFindExecutions API wrapper
• systemFindGlobalWorkflows
  systemFindGlobalWorkflows API wrapper
• systemFindJobs
  systemFindJobs API wrapper
• systemFindOrgs
  systemFindOrgs API wrapper
• systemFindProjectMembers
  systemFindProjectMembers API wrapper
• systemFindProjects
  systemFindProjects API wrapper
• systemFindUsers
  systemFindUsers API wrapper
• systemGenerateBatchInputs
  systemGenerateBatchInputs API wrapper
• systemGlobalSearch
  systemGlobalSearch API wrapper
• systemGreet
  systemGreet API wrapper
• systemHeaders
  systemHeaders API wrapper
• systemResolveDataObjects
  systemResolveDataObjects API wrapper
• systemShortenURL
  systemShortenURL API wrapper
• systemWhoami
  systemWhoami API wrapper
• userDescribe
  userDescribe API wrapper
• userUpdate
  userUpdate API wrapper
• workflowAddStage
  workflowAddStage API wrapper
• workflowAddTags
  workflowAddTags API wrapper
• workflowAddTypes
  workflowAddTypes API wrapper
• workflowClose
  workflowClose API wrapper
• workflowDescribe
  workflowDescribe API wrapper
• workflowDryRun
  workflowDryRun API wrapper
• workflowGetDetails
  workflowGetDetails API wrapper
• workflowIsStageCompatible
  workflowIsStageCompatible API wrapper
• workflowListProjects
  workflowListProjects API wrapper
• workflowMoveStage
  workflowMoveStage API wrapper
• workflowNew
  workflowNew API wrapper
• workflowOverwrite
  workflowOverwrite API wrapper
• workflowRemoveStage
  workflowRemoveStage API wrapper
• workflowRemoveTags
  workflowRemoveTags API wrapper
• workflowRemoveTypes
  workflowRemoveTypes API wrapper
• workflowRename
  workflowRename API wrapper
• workflowRun
  workflowRun API wrapper
• workflowSetDetails
  workflowSetDetails API wrapper
• workflowSetProperties
  workflowSetProperties API wrapper
• workflowSetStageInputs
  workflowSetStageInputs API wrapper
• workflowSetVisibility
  workflowSetVisibility API wrapper
• workflowUpdate
  workflowUpdate API wrapper
• workflowUpdateStageExecutable
  workflowUpdateStageExecutable API wrapper
• workflowValidateBatch
  workflowValidateBatch API wrapper