NGS workflow templates and sample data
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README.md

systemPipeRdata: NGS workflow templates and sample data

systemPipeRdata is a helper package to generate with a single command NGS workflow templates that are intended to be used by its parent package systemPipeR. The latter is an environment for building end-to-end analysis pipelines with automated report generation for next generation sequence (NGS) applications such as RNA-Seq, ChIP-Seq, VAR-Seq, Ribo-Seq and many others.

Installation

systemPipeRdata can be installed directly from GitHub using the devtools package from CRAN.

devtools::install_github("tgirke/systemPipeRdata")

Alternatively, one can install it with the Bioconductor biocLite command.

source("http://bioconductor.org/biocLite.R")
biocLite("tgirke/systemPipeRdata", build_vignettes=TRUE, dependencies=TRUE)

Due to the large size of the sample data (~320 MB) provided by systemPipeRdata, its download/install may take some time.

To install the parent package systemPipeR itself, please use the biocLite method as instructed here.

Usage

Detailed user manuals are available here:

Additional information can be found on the corresponding Bioconductor package overview page.