systemPipeRdata
This is the development version of systemPipeRdata; for the stable release version, see systemPipeRdata.
systemPipeRdata: Workflow templates and sample data
Bioconductor version: Development (3.20)
systemPipeRdata complements the systemPipeR workflow management system (WMS) by offering a collection of pre-designed data analysis workflow templates. These templates are easily accessible and can be readily loaded onto a user's system with a single command. Once loaded, the WMS can immediately utilize these templates for efficient end-to-end analysis, serving a wide range of data analysis needs.
Author: Thomas Girke
Maintainer: Thomas Girke <thomas.girke at ucr.edu>
citation("systemPipeRdata")
):
Installation
To install this package, start R (version "4.4") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
# The following initializes usage of Bioc devel
BiocManager::install(version='devel')
BiocManager::install("systemPipeRdata")
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("systemPipeRdata")
systemPipeRdata: Workflow templates and sample data | HTML | R Script |
WF: Basic Generic Template | HTML | R Script |
WF: Basic Single Cell Template | HTML | R Script |
WF: BLAST Template | HTML | R Script |
WF: Cheminformatics Drug Similarity Template | 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 | HTML | R Script |
Reference Manual | ||
NEWS | Text |
Details
biocViews | Alignment, ChIPSeq, Coverage, DataImport, ExperimentData, GeneExpression, GeneSetEnrichment, Genetics, ImmunoOncology, Infrastructure, MethylSeq, QualityControl, RNASeq, RiboSeq, SNP, Sequencing, WorkflowStep |
Version | 2.9.6 |
License | Artistic-2.0 |
Depends | R (>= 3.6.0) |
Imports | methods, Biostrings, BiocGenerics, jsonlite, remotes |
System Requirements | |
URL | https://github.com/tgirke/systemPipeRdata https://systempipe.org/ |
See More
Suggests | GenomicFeatures, GenomicRanges, IRanges, Rsamtools, ShortRead, rtracklayer, RUnit, BiocStyle, knitr, rmarkdown, systemPipeR, kableExtra, magrittr, dplyr |
Linking To | |
Enhances | |
Depends On Me | |
Imports Me | |
Suggests Me | systemPipeR, systemPipeShiny |
Links To Me | |
Build Report | Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
Source Package | systemPipeRdata_2.9.6.tar.gz |
Windows Binary | |
macOS Binary (x86_64) | |
macOS Binary (arm64) | |
Source Repository | git clone https://git.bioconductor.org/packages/systemPipeRdata |
Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/systemPipeRdata |
Package Short Url | https://bioconductor.org/packages/systemPipeRdata/ |
Package Downloads Report | Download Stats |