DOI: 10.18129/B9.bioc.systemPipeRdata  

This package is for version 3.17 of Bioconductor; for the stable, up-to-date release version, see systemPipeRdata.

systemPipeRdata: Workflow templates and sample data

Bioconductor version: 3.17

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, RIBO-Seq, ChIP-Seq, VAR-Seq and many others. Detailed examples for using systemPipeRdata are given in systemPipeR's overview vignette.

Author: Thomas Girke

Maintainer: Thomas Girke <thomas.girke at>

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


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HTML R Script systemPipeRdata: Workflow templates and sample data
HTML R Script WF: ChIP-Seq Workflow Template
HTML R Script WF: RIBO-Seq Workflow Template
HTML R Script WF: RNA-Seq Workflow Template
HTML R Script WF: VAR-Seq Template
PDF   Reference Manual
Text   NEWS


biocViews Alignment, ChIPSeq, Coverage, DataImport, ExperimentData, GeneExpression, GeneSetEnrichment, Genetics, ImmunoOncology, Infrastructure, MethylSeq, QualityControl, RNASeq, RiboSeq, SNP, Sequencing, WorkflowStep
Version 2.4.0
License Artistic-2.0
Imports methods, Biostrings, BiocGenerics, jsonlite, remotes
Suggests GenomicFeatures, GenomicRanges, IRanges, Rsamtools, ShortRead, rtracklayer, RUnit, BiocStyle, knitr, rmarkdown, systemPipeR
Depends On Me
Imports Me
Suggests Me systemPipeR, systemPipeShiny
Links To Me
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