sevenbridges

This package is deprecated. It will probably be removed from Bioconductor. Please refer to the package end-of-life guidelines for more information.

This is the development version of sevenbridges; for the stable release version, see sevenbridges.

All versions

3.24 (devel), 3.23 (release), 3.22, 3.21, 3.20, 3.19, 3.18, 3.17, 3.16, 3.15, 3.14, 3.13, 3.12, 3.11, 3.10, 3.9, 3.8, 3.7, 3.6, 3.5, 3.4, 3.3

Seven Bridges Platform API Client and Common Workflow Language Tool Builder in R

Bioconductor version: Development (3.24)

R client and utilities for Seven Bridges platform API, from Cancer Genomics Cloud to other Seven Bridges supported platforms.

Author: Phil Webster [aut, cre], Soner Koc [aut] ORCID: 0000-0002-0772-6600 , Nan Xiao [aut], Tengfei Yin [aut], Dusan Randjelovic [ctb], Emile Young [ctb], Velsera [cph, fnd]

Maintainer: Phil Webster <phil.webster at velsera.com>

Citation (from within R, enter citation("sevenbridges")):

Phil Webster, Soner Koc, Nan Xiao, Tengfei Yin. sevenbridges: Seven Bridges Platform API Client and Common Workflow Language Tool Builder in R. doi:10.18129/B9.bioc.sevenbridges, R package version 1.43.1, https://bioconductor.org/packages/sevenbridges.

Generated from the package metadata; it may differ from the package's own citation.

Installation

To install this package, start R (version "4.6") and enter:

if (!require("BiocManager", quietly = TRUE))
    install.packages("BiocManager")

## The following initializes the development version of Bioconductor
BiocManager::install(version = "devel")

BiocManager::install("sevenbridges")

For older versions of R, please refer to the appropriate Bioconductor release.

Documentation

To view documentation for the version of this package installed in your system, start R and enter:

browseVignettes("sevenbridges")

Complete Guide for Seven Bridges API R Client	HTML	R Script
Describe and Execute CWL Tools/Workflows in R	HTML	R Script
Master Tutorial: Use R for Cancer Genomics Cloud	HTML	R Script
Find Data on CGC via Data Browser and Datasets API	HTML	R Script
Creating Your Docker Container and Command Line Interface (with docopt)	HTML	R Script
IDE Container: RStudio Server, Shiny Server, and More	HTML	R Script
Reference Manual	PDF
NEWS	Text
LICENSE	Text

Need some help? Ask on the Bioconductor Support site!

Details

biocViews	DataImport, Software, ThirdPartyClient
Version	1.43.1
In Bioconductor since	BioC 3.3 (R-3.3) (10.5 years)
License	Apache License 2.0 \| file LICENSE
Depends	methods, utils, stats
Imports	httr, jsonlite, yaml, objectProperties, stringr, S4Vectors, docopt, curl, uuid, data.table
System Requirements
URL	https://www.sevenbridges.com https://sbg.github.io/sevenbridges-r/ https://github.com/sbg/sevenbridges-r
Bug Reports	https://github.com/sbg/sevenbridges-r/issues

Suggests	knitr, rmarkdown, testthat, readr
Linking To
Enhances
Depends On Me
Imports Me
Suggests Me
Links To Me
Build Report	Build Report, r-universe

Package Archives

Follow Installation instructions to use this package in your R session.

Source Package	sevenbridges_1.43.1.tar.gz
Windows Binary (x86_64)	sevenbridges_1.43.1.zip
macOS Binary (big-sur-x86_64)	sevenbridges_1.43.1.tgz
macOS Binary (sonoma-arm64)	sevenbridges_1.43.1.tgz
Source Repository	git clone https://git.bioconductor.org/packages/sevenbridges
Source Repository (Developer Access)	git clone git@git.bioconductor.org:packages/sevenbridges
Package Short Url	https://bioconductor.org/packages/sevenbridges/
Package Downloads Report	Download Stats