Package: GalaxyR 0.1.2

GalaxyR: 'Galaxy' API Implementation

On 'Galaxy' platforms like 'Galaxy Europe' <https://usegalaxy.eu>, many tools and workflows can run directly on a high-performance computer. 'GalaxyR' connects R with 'Galaxy' platforms API <https://usegalaxy.eu/api/docs> and allows credential management, uploading data, invoking workflows or tools, checking their status, and downloading results.

Authors:Julian Frey [aut, cre], Zoe Schindler [ctb]

GalaxyR_0.1.2.tar.gz
GalaxyR_0.1.2.zip(r-4.7-any)GalaxyR_0.1.2.zip(r-4.6-any)GalaxyR_0.1.2.zip(r-4.5-any)
GalaxyR_0.1.2.tgz(r-4.6-any)GalaxyR_0.1.2.tgz(r-4.5-any)
GalaxyR_0.1.2.tar.gz(r-4.7-any)GalaxyR_0.1.2.tar.gz(r-4.6-any)
GalaxyR_0.1.2.tgz(r-4.6-emscripten)
manual.pdf |manual.html✨
DESCRIPTION |NEWS
card.svg |card.png
GalaxyR/json (API)

# Install 'GalaxyR' in R:
install.packages('GalaxyR', repos = c('https://julfrey.r-universe.dev', 'https://cloud.r-project.org'))

Bug tracker:https://github.com/julfrey/galaxyr/issues

On CRAN:

Conda:

4.43 score 6 stars 2 scripts 290 downloads 27 exports 8 dependencies

Last updated from:23af557509. Checks:9 OK. Indexed: yes.

TargetResultTimeFilesSyslog
linux-develOK90
source / vignettesOK170
linux-releaseOK94
macos-releaseOK152
macos-oldrelOK199
windows-develOK49
windows-releaseOK66
windows-oldrelOK66
wasm-releaseOK89

Exports:galaxygalaxy_delete_datasetgalaxy_delete_datasetsgalaxy_delete_historygalaxy_download_resultgalaxy_download_rocrategalaxy_get_file_infogalaxy_get_toolgalaxy_get_tool_idgalaxy_get_workflowgalaxy_get_workflow_inputsgalaxy_has_keygalaxy_history_sizegalaxy_initializegalaxy_list_filesgalaxy_list_historiesgalaxy_list_invocationsgalaxy_list_toolsgalaxy_list_workflowsgalaxy_poll_toolgalaxy_poll_workflowgalaxy_print_tool_inputsgalaxy_run_toolgalaxy_set_credentialsgalaxy_start_workflowgalaxy_upload_ftpgalaxy_upload_https

Dependencies:askpasscurlhttrjsonlitemimeopensslR6sys

Readme and manuals

Help Manual

Help pageTopics
Create a Galaxy session objectgalaxy
Delete a Galaxy dataset by IDgalaxy_delete_dataset
Delete multiple Galaxy datasets by IDgalaxy_delete_datasets
Generic for deleting a Galaxy historygalaxy_delete_history galaxy_delete_history,character-method galaxy_delete_history,Galaxy-method
Generic for downloading files from a historygalaxy_download_result galaxy_download_result,character-method galaxy_download_result,Galaxy-method
Generic for downloading a history as an RO-Crategalaxy_download_rocrate galaxy_download_rocrate,character-method galaxy_download_rocrate,Galaxy-method
Get information for one or more Galaxy datasetsgalaxy_get_file_info
Retrieve detailed metadata for a Galaxy toolgalaxy_get_tool
Retrieve Galaxy tool IDs by namegalaxy_get_tool_id
Receive workflow metadata from the APIgalaxy_get_workflow
Retrieve input definitions for a Galaxy workflowgalaxy_get_workflow_inputs
Check whether a Galaxy API key is availablegalaxy_has_key
Galaxy history size Get the disk usage / size of a Galaxy historygalaxy_history_size
Create a new Galaxy historygalaxy_initialize galaxy_initialize,Galaxy-method galaxy_initialize,missing-method
List all files (datasets) in a Galaxy historygalaxy_list_files galaxy_list_files,character-method galaxy_list_files,Galaxy-method
List Galaxy histories (name and history id)galaxy_list_histories
List workflow invocations for a given workflowgalaxy_list_invocations
List tools installed on a Galaxy instancegalaxy_list_tools
List workflows available to the usergalaxy_list_workflows
Generic for galaxy_poll_toolgalaxy_poll_tool galaxy_poll_tool,character-method galaxy_poll_tool,Galaxy-method
Generic for polling workflowsgalaxy_poll_workflow galaxy_poll_workflow,character-method galaxy_poll_workflow,Galaxy-method
Print tool inputsgalaxy_print_tool_inputs
Generic run toolgalaxy_run_tool galaxy_run_tool,character-method galaxy_run_tool,Galaxy-method
Set Galaxy connection parameters for the current R sessiongalaxy_set_credentials
Generic start workflowgalaxy_start_workflow galaxy_start_workflow,character-method galaxy_start_workflow,Galaxy-method
Generic upload ftpgalaxy_upload_ftp galaxy_upload_ftp,character-method galaxy_upload_ftp,Galaxy-method
Generic upload file with httpsgalaxy_upload_https galaxy_upload_https,character-method galaxy_upload_https,Galaxy-method
Galaxy session objectGalaxy-class