BiocCheck

This is the development version of BiocCheck; for the stable release version, see BiocCheck.

Bioconductor-specific package checks

Bioconductor version: Development (3.21)

BiocCheck guides maintainers through Bioconductor best practicies. It runs Bioconductor-specific package checks by searching through package code, examples, and vignettes. Maintainers are required to address all errors, warnings, and most notes produced.

Author: Bioconductor Package Maintainer [aut], Lori Shepherd [aut], Daniel von Twisk [ctb], Kevin Rue [ctb], Marcel Ramos [aut, cre] (ORCID: ), Leonardo Collado-Torres [ctb], Federico Marini [ctb]

Maintainer: Marcel Ramos <marcel.ramos at sph.cuny.edu>

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

Installation

To install this package, start R (version "4.5") and enter:


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

# The following initializes usage of Bioc devel
BiocManager::install(version='devel')

BiocManager::install("BiocCheck")

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("BiocCheck")

BiocCheck: Ensuring Bioconductor package guidelines	HTML	R Script
Reference Manual	PDF
NEWS	Text

Need some help? Ask on the Bioconductor Support site!

Details

biocViews	Infrastructure, Software
Version	1.43.0
In Bioconductor since	BioC 2.14 (R-3.1) (10.5 years)
License	Artistic-2.0
Depends	R (>= 4.4.0)
Imports	BiocBaseUtils, BiocFileCache, BiocManager, biocViews, callr, cli, codetools, graph, httr2, knitr, methods, rvest, stringdist, tools, utils
System Requirements
URL	https://github.com/Bioconductor/BiocCheck
Bug Reports	https://github.com/Bioconductor/BiocCheck/issues

Suggests	BiocStyle, devtools, gert, jsonlite, rmarkdown, tinytest, usethis
Linking To
Enhances
Depends On Me
Imports Me	AnnotationHubData, gDRstyle
Suggests Me	GEOfastq, SpectralTAD, packFinder, preciseTAD, HMP16SData, HMP2Data, scpdata, MainExistingDatasets
Links To Me
Build Report	Build Report

Package Archives

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

Source Package	BiocCheck_1.43.0.tar.gz
Windows Binary (x86_64)
macOS Binary (x86_64)
macOS Binary (arm64)
Source Repository	git clone https://git.bioconductor.org/packages/BiocCheck
Source Repository (Developer Access)	git clone git@git.bioconductor.org:packages/BiocCheck
Bioc Package Browser	https://code.bioconductor.org/browse/BiocCheck/
Package Short Url	https://bioconductor.org/packages/BiocCheck/
Package Downloads Report	Download Stats