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systemPipeRdata
This is thereleased version of systemPipeRdata; for the devel version, seesystemPipeRdata.
systemPipeRdata: Workflow templates and sample data
Bioconductor version: Release (3.22)
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 "4.5") and enter:
if (!require("BiocManager", quietly = TRUE)) install.packages("BiocManager")BiocManager::install("systemPipeRdata")For older versions of R, please refer to the appropriateBioconductor 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 | 2.14.0 |
| License | Artistic-2.0 |
| Depends | R (>= 3.6.0) |
| Imports | methods,Biostrings,BiocGenerics,jsonlite,remotes |
| System Requirements | |
| URL | https://github.com/tgirke/systemPipeRdata |
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
FollowInstallation instructions to use this package in your R session.
| Source Package | systemPipeRdata_2.14.0.tar.gz |
| Windows Binary (x86_64) | |
| 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 |