Bioconductor on the AnVIL compute environment
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Documentation for package ‘AnVIL’ version 1.16.1
Help Pages
A B D E F G I L O P R S T U misc
-- A --
| add_libpaths | Utilities for managing library paths |
| AnVIL-defunct | Defunct functions in package 'AnVIL' |
| AnVIL-deprecated | Deprecated AnVIL functionality |
| as.list.response | Process service responses to tibble and other data structures. |
| av | TABLE, DATA, files, bucket, runtime, and disk elements |
| avbucket | TABLE, DATA, files, bucket, runtime, and disk elements |
| avdata | TABLE, DATA, files, bucket, runtime, and disk elements |
| avdata_import | TABLE, DATA, files, bucket, runtime, and disk elements |
| avdisks | TABLE, DATA, files, bucket, runtime, and disk elements |
| avfiles_backup | TABLE, DATA, files, bucket, runtime, and disk elements |
| avfiles_ls | TABLE, DATA, files, bucket, runtime, and disk elements |
| avfiles_restore | TABLE, DATA, files, bucket, runtime, and disk elements |
| avfiles_rm | TABLE, DATA, files, bucket, runtime, and disk elements |
| avnotebooks | Notebook management |
| avnotebooks_delocalize | Notebook management |
| avnotebooks_localize | Notebook management |
| avruntime | TABLE, DATA, files, bucket, runtime, and disk elements |
| avruntimes | TABLE, DATA, files, bucket, runtime, and disk elements |
| avtable | TABLE, DATA, files, bucket, runtime, and disk elements |
| avtables | TABLE, DATA, files, bucket, runtime, and disk elements |
| avtable_delete_values | TABLE, DATA, files, bucket, runtime, and disk elements |
| avtable_gadget | Graphical user interfaces for common AnVIL operations |
| avtable_import | TABLE, DATA, files, bucket, runtime, and disk elements |
| avtable_import_set | TABLE, DATA, files, bucket, runtime, and disk elements |
| avtable_import_status | TABLE, DATA, files, bucket, runtime, and disk elements |
| avtable_paged | TABLE, DATA, files, bucket, runtime, and disk elements |
| avworkflow | Workflow configuration |
| avworkflows | Workflow submissions and file outputs |
| avworkflow_configuration | Defunct functions in package 'AnVIL' |
| avworkflow_configurations | Workflow configuration |
| avworkflow_configuration_get | Workflow configuration |
| avworkflow_configuration_inputs | Workflow configuration |
| avworkflow_configuration_outputs | Workflow configuration |
| avworkflow_configuration_set | Workflow configuration |
| avworkflow_configuration_template | Workflow configuration |
| avworkflow_configuration_update | Workflow configuration |
| avworkflow_files | Workflow submissions and file outputs |
| avworkflow_gadget | Graphical user interfaces for common AnVIL operations |
| avworkflow_import_configuration | Defunct functions in package 'AnVIL' |
| avworkflow_info | Workflow submissions and file outputs |
| avworkflow_jobs | Workflow submissions and file outputs |
| avworkflow_localize | Workflow submissions and file outputs |
| avworkflow_name | Workflow configuration |
| avworkflow_namespace | Workflow configuration |
| avworkflow_run | Workflow submissions and file outputs |
| avworkflow_stop | Workflow submissions and file outputs |
| avworkspace | Workspace management |
| avworkspaces | Workspace management |
| avworkspace_clone | Workspace management |
| avworkspace_gadget | Graphical user interfaces for common AnVIL operations |
| avworkspace_name | Workspace management |
| avworkspace_namespace | Workspace management |
-- B --
| BINARY_BASE_URL | Defunct functions in package 'AnVIL' |
| browse_workspace | Graphical user interfaces for common AnVIL operations |
-- D --
| delocalize | Copy packages, folders, or files to or from google buckets. |
| Dockstore | RESTful services useful for AnVIL developers |
| Dockstore-class | RESTful services useful for AnVIL developers |
| drs_access_url | DRS (Data Repository Service) URL management |
| drs_cp | DRS (Data Repository Service) URL management |
| drs_stat | DRS (Data Repository Service) URL management |
-- E --
| empty_object | RESTful services useful for AnVIL developers |
-- F --
| flatten | Process service responses to tibble and other data structures. |
| flatten-method | Process service responses to tibble and other data structures. |
-- G --
| gcloud | gcloud command line utility interface |
| gcloud_account | gcloud command line utility interface |
| gcloud_cmd | gcloud command line utility interface |
| gcloud_exists | gcloud command line utility interface |
| gcloud_help | gcloud command line utility interface |
| gcloud_project | gcloud command line utility interface |
| gcloud_storage | gcloud command line utility interface |
| gcloud_storage_buckets | gcloud command line utility interface |
| Gen3Fence | Defunct functions in package 'AnVIL' |
| Gen3Indexd | Defunct functions in package 'AnVIL' |
| Gen3Peregrine | Defunct functions in package 'AnVIL' |
| Gen3Sheepdog | Defunct functions in package 'AnVIL' |
| gsutil | gsutil command line utility interface |
| gsutil_cat | gsutil command line utility interface |
| gsutil_cp | gsutil command line utility interface |
| gsutil_exists | gsutil command line utility interface |
| gsutil_help | gsutil command line utility interface |
| gsutil_ls | gsutil command line utility interface |
| gsutil_pipe | gsutil command line utility interface |
| gsutil_requesterpays | gsutil command line utility interface |
| gsutil_rm | gsutil command line utility interface |
| gsutil_rsync | gsutil command line utility interface |
| gsutil_stat | gsutil command line utility interface |
-- I --
| install | Defunct functions in package 'AnVIL' |
-- L --
| Leonardo | RESTful services useful for AnVIL developers |
| Leonardo-class | RESTful services useful for AnVIL developers |
| localize | Copy packages, folders, or files to or from google buckets. |
-- O --
| operations | RESTful services useful for AnVIL developers |
| operations-method | RESTful services useful for AnVIL developers |
-- P --
| print.avworkflow_configuration | Workflow configuration |
| print.repository_stats | Deprecated AnVIL functionality |
-- R --
| Rawls | RESTful services useful for AnVIL developers |
| Rawls-class | RESTful services useful for AnVIL developers |
| repositories | Defunct functions in package 'AnVIL' |
| repository | Defunct functions in package 'AnVIL' |
| repository_stats | Deprecated AnVIL functionality |
| Response | Process service responses to tibble and other data structures. |
-- S --
| schemas | RESTful services useful for AnVIL developers |
| schemas-method | RESTful services useful for AnVIL developers |
| Service | RESTful service constructor |
| Service-class | RESTful services useful for AnVIL developers |
| Services | RESTful services useful for AnVIL developers |
| show-method | RESTful services useful for AnVIL developers |
| str-method | Process service responses to tibble and other data structures. |
-- T --
| tags | RESTful services useful for AnVIL developers |
| Terra | RESTful services useful for AnVIL developers |
| Terra-class | RESTful services useful for AnVIL developers |
-- U --
| utilities | Utilities for managing library paths |
-- misc --
| $-method | RESTful services useful for AnVIL developers |
| .DollarNames.Service | RESTful services useful for AnVIL developers |
| .gadget_run | Functions to implement AnVIL gadget interfaces |