RcwlPipelines

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

Bioinformatics pipelines based on Rcwl


Bioconductor version: 3.9

A collection of Bioinformatics tools and pipelines based on R and the Common Workflow Language.

Author: Qiang Hu [aut, cre], Shuang Gao [aut]

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

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

Installation

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


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

BiocManager::install("RcwlPipelines")

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("RcwlPipelines")
Rcwl Pipelines HTML R Script
Reference Manual PDF
NEWS Text

Details

biocViews Alignment, DNASeq, DataImport, ImmunoOncology, Preprocessing, QualityControl, RNASeq, Software, WorkflowStep
Version 1.0.11
In Bioconductor since BioC 3.9 (R-3.6) (5 years)
License GPL-2
Depends R (>= 3.6), Rcwl, BiocFileCache
Imports dplyr, rappdirs, jsonlite, methods
System Requirements nodejs
URL
See More
Suggests testthat, knitr, rmarkdown, BiocStyle
Linking To
Enhances
Depends On Me
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 RcwlPipelines_1.0.11.tar.gz
Windows Binary
Mac OS X 10.11 (El Capitan) RcwlPipelines_1.0.11.tgz
Source Repository git clone https://git.bioconductor.org/packages/RcwlPipelines
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/RcwlPipelines
Bioc Package Browser https://code.bioconductor.org/browse/RcwlPipelines/
Package Short Url https://bioconductor.org/packages/RcwlPipelines/
Package Downloads Report Download Stats
Old Source Packages for BioC 3.9 Source Archive