ReUseData

DOI: 10.18129/B9.bioc.ReUseData  

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

Reusable and reproducible Data Management

Bioconductor version: 3.17

ReUseData is an _R/Bioconductor_ software tool to provide a systematic and versatile approach for standardized and reproducible data management. ReUseData facilitates transformation of shell or other ad hoc scripts for data preprocessing into workflow-based data recipes. Evaluation of data recipes generate curated data files in their generic formats (e.g., VCF, bed). Both recipes and data are cached using database infrastructure for easy data management and reuse. Prebuilt data recipes are available through ReUseData portal ("https://rcwl.org/dataRecipes/") with full annotation and user instructions. Pregenerated data are available through ReUseData cloud bucket that is directly downloadable through "getCloudData()".

Author: Qian Liu [aut, cre]

Maintainer: Qian Liu <qian.liu at roswellpark.org>

Installation

To install this package, start R (version "4.3") and enter:

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

BiocManager::install("ReUseData")

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("ReUseData")

 

HTML	R Script	ReUseDataData
HTML	R Script	ReUseDataQS
HTML	R Script	ReUseDataRecipes
PDF		Reference Manual
Text		README
Text		NEWS

Details

biocViews	DataImport, ImmunoOncology, Infrastructure, Preprocessing, Software
Version	1.0.0
In Bioconductor since	BioC 3.17 (R-4.3) (< 6 months)
License	GPL-3
Depends
Imports	Rcwl, RcwlPipelines, BiocFileCache, S4Vectors, stats, tools, utils, methods, jsonlite, yaml, basilisk
LinkingTo
Suggests	knitr, rmarkdown, testthat (>= 3.0.0)
SystemRequirements
Enhances
URL	https://github.com/rworkflow/ReUseData
BugReports	https://github.com/rworkflow/ReUseData/issues
Depends On Me
Imports Me
Suggests Me
Links To Me
Build Report

Package Archives

Follow Installation instructions to use this package in your R session.

Source Package	ReUseData_1.0.0.tar.gz
Windows Binary
macOS Binary (x86_64)	ReUseData_1.0.0.tgz
macOS Binary (arm64)	ReUseData_1.0.1.tgz
Source Repository	git clone https://git.bioconductor.org/packages/ReUseData
Source Repository (Developer Access)	git clone git@git.bioconductor.org:packages/ReUseData
Bioc Package Browser	https://code.bioconductor.org/browse/ReUseData/
Package Short Url	https://bioconductor.org/packages/ReUseData/
Package Downloads Report	Download Stats