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

An R interface to the Common Workflow Language

Bioconductor version: Development (3.20)

The Common Workflow Language (CWL) is an open standard for development of data analysis workflows that is portable and scalable across different tools and working environments. Rcwl provides a simple way to wrap command line tools and build CWL data analysis pipelines programmatically within R. It increases the ease of usage, development, and maintenance of CWL pipelines.

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

Maintainer: Qiang Hu < at>

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


To install this package, start R (version "4.4") and enter:

if (!require("BiocManager", quietly = TRUE))

# The following initializes usage of Bioc devel


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


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

Rcwl: An R interface to the Common Workflow Language HTML R Script
Reference Manual PDF


biocViews ImmunoOncology, Software, WorkflowStep
Version 1.21.1
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, basilisk
System Requirements
See More
Suggests testthat, knitr, rmarkdown, BiocStyle
Linking To
Depends On Me RcwlPipelines
Imports Me ReUseData
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_1.21.1.tar.gz
Windows Binary
macOS Binary (x86_64) Rcwl_1.21.1.tgz
macOS Binary (arm64) Rcwl_1.21.1.tgz
Source Repository git clone
Source Repository (Developer Access) git clone
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