Package: AnVILWorkflow 1.5.0
Sehyun Oh
AnVILWorkflow: Run workflows implemented in Terra/AnVIL workspace
The AnVIL is a cloud computing resource developed in part by the National Human Genome Research Institute. The main cloud-based genomics platform deported by the AnVIL project is Terra. The AnVILWorkflow package allows remote access to Terra implemented workflows, enabling end-user to utilize Terra/ AnVIL provided resources - such as data, workflows, and flexible/scalble computing resources - through the conventional R functions.
Authors:
AnVILWorkflow_1.5.0.tar.gz
AnVILWorkflow_1.5.0.zip(r-4.5)AnVILWorkflow_1.5.0.zip(r-4.4)AnVILWorkflow_1.5.0.zip(r-4.3)
AnVILWorkflow_1.5.0.tgz(r-4.4-any)AnVILWorkflow_1.5.0.tgz(r-4.3-any)
AnVILWorkflow_1.5.0.tar.gz(r-4.5-noble)AnVILWorkflow_1.5.0.tar.gz(r-4.4-noble)
AnVILWorkflow_1.5.0.tgz(r-4.4-emscripten)AnVILWorkflow_1.5.0.tgz(r-4.3-emscripten)
AnVILWorkflow.pdf |AnVILWorkflow.html✨
AnVILWorkflow/json (API)
NEWS
| # Install 'AnVILWorkflow' in R: |
| install.packages('AnVILWorkflow', repos = c('https://bioc.r-universe.dev', 'https://cloud.r-project.org')) |
Bug tracker:https://github.com/shbrief/anvilworkflow/issues
On BioConductor:AnVILWorkflow-1.5.0(bioc 3.20)AnVILWorkflow-1.4.0(bioc 3.19)
Last updated 2 months agofrom:b17b6295b0
Exports:AnVILBrowseavailableAnalysiscloneWorkspacecurrentInputfindInputNamegetAllDataTablesgetAllWorkflowsgetDashboardgetDatagetOutputgetWorkflowConfiggetWorkflowsgetWorkspacesmonitorWorkflowrunWorkflowsetCloudEnvstopWorkflowupdateInput
Dependencies:AnVILaskpassbase64encBiocBaseUtilsBiocManagerbslibcachemclicommonmarkcpp11crayoncrosstalkcurldigestdplyrDTevaluatefansifastmapfontawesomeformatRfsfutile.loggerfutile.optionsgenericsgluehighrhtmltoolshtmlwidgetshttpuvhttrjquerylibjsonliteknitrlambda.rlaterlazyevallifecyclemagrittrmemoisemimeminiUIopensslpillarpkgconfigpromisespurrrR6rapiclientrappdirsRcpprlangrmarkdownsassshinysourcetoolsstringistringrsystibbletidyrtidyselecttinytexutf8vctrswithrxfunxtableyaml
Readme and manuals
Help Manual
| Help page | Topics |
|---|---|
| Search keywords in a given metadata table | .search_keyword |
| Search AnVIL workspaces using keywords | AnVILBrowse |
| Find the available analysis | availableAnalysis |
| Clone template workspace | cloneWorkspace |
| Check the current input arguments | currentInput |
| Find the root entity name | findInputName |
| Get all the data tables | getAllDataTables |
| Collect workflows from all workspaces a user has access to | getAllWorkflows |
| Get AnVIL workspaces | getAllWorkspaces |
| Print out Dashboard contents | getDashboard |
| Creates a metadata table of data from all workspaces provided | getData |
| Download output files from Terra | getOutput |
| Check the workflow configuration | getWorkflowConfig |
| Creates a metadata table of workflows from all workspaces provided | getWorkflows |
| Creates a metadata table of all workspaces | getWorkspaces |
| Check the status of submitted jobs | monitorWorkflow |
| Launch Terra workflow | runWorkflow |
| Setup Google Cloud Account and Project | setCloudEnv |
| Abort submitted job | stopWorkflow |
| Update the input | updateInput |
