Rcwl

This package is for version 3.9 of Bioconductor; for the stable, up-to-date release version, see Rcwl.

Wrap Command Tools and Pipelines Using CWL


Bioconductor version: 3.9

The package can be a simple and user-friendly way to manage command line tools and build data analysis pipelines in R using Common Workflow Language (CWL).

Author: Qiang Hu [aut, cre], Qian Liu [aut]

Maintainer: Qiang Hu <qiang.hu at roswellpark.org>

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

Installation

To install this package, start R (version "3.6") and enter:


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

BiocManager::install("Rcwl")

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("Rcwl")
User Guide for Rcwl HTML R Script
Reference Manual PDF
NEWS Text
LICENSE Text

Details

biocViews ImmunoOncology, Software, WorkflowStep
Version 1.0.14
In Bioconductor since BioC 3.9 (R-3.6) (5 years)
License GPL-2 | file LICENSE
Depends R (>= 3.6), yaml, methods, S4Vectors
Imports utils, stats, BiocParallel, batchtools, DiagrammeR, shiny, R.utils, codetools
System Requirements python (>= 2.7), cwltool (>= 1.0.2018)
URL
See More
Suggests testthat, knitr, rmarkdown, BiocStyle
Linking To
Enhances
Depends On Me RcwlPipelines
Imports Me
Suggests Me
Links To Me
Build Report Build Report

Package Archives

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

Source Package Rcwl_1.0.14.tar.gz
Windows Binary
Mac OS X 10.11 (El Capitan) Rcwl_1.0.14.tgz
Source Repository git clone https://git.bioconductor.org/packages/Rcwl
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/Rcwl
Bioc Package Browser https://code.bioconductor.org/browse/Rcwl/
Package Short Url https://bioconductor.org/packages/Rcwl/
Package Downloads Report Download Stats
Old Source Packages for BioC 3.9 Source Archive