BiocCheck

This is the released version of BiocCheck; for the devel version, see BiocCheck.

All versions

3.24 (devel), 3.23 (release), 3.22, 3.21, 3.20, 3.19, 3.18, 3.17, 3.16, 3.15, 3.14, 3.13, 3.12, 3.11, 3.10, 3.9, 3.8, 3.7, 3.6, 3.5, 3.4, 3.3, 3.2, 3.1, 3.0, 2.14

Bioconductor-specific package checks

Bioconductor version: Release (3.23)

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: 0000-0002-3242-0582 , Leonardo Collado-Torres [ctb], Federico Marini [ctb]

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

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

Bioconductor Package Maintainer, Lori Shepherd, Marcel Ramos. BiocCheck: Bioconductor-specific package checks. doi:10.18129/B9.bioc.BiocCheck, R package version 1.48.1, https://bioconductor.org/packages/BiocCheck.

Generated from the package metadata; it may differ from the package's own citation.

Installation

To install this package, start R (version "4.6") and enter:

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

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	1.48.1
In Bioconductor since	BioC 2.14 (R-3.1) (12.5 years)
License	Artistic-2.0
Depends	R (>= 4.4.0)
Imports	BiocBaseUtils, BiocFileCache, BiocManager, biocViews, callr, cli, codetools, commonmark, graph, httr2, knitr, methods, rvest, stringdist, tools, utils, xml2
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, methodical
Suggests Me	ExpoRiskR, GEOfastq, HMP16SData, HMP2Data, MainExistingDatasets, packFinder, preciseTAD, ReducedExperiment, scpdata, SpatialArtifacts, SpectralTAD, vennDiagramLab
Links To Me
Build Report	Build Report, r-universe

Package Archives

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

Source Package	BiocCheck_1.48.1.tar.gz
Windows Binary (x86_64)	BiocCheck_1.48.1.zip
macOS Binary (big-sur-x86_64)	BiocCheck_1.48.1.tgz
macOS Binary (sonoma-arm64)	BiocCheck_1.48.1.tgz
Source Repository	git clone https://git.bioconductor.org/packages/BiocCheck
Source Repository (Developer Access)	git clone git@git.bioconductor.org:packages/BiocCheck
Package Short Url	https://bioconductor.org/packages/BiocCheck/
Package Downloads Report	Download Stats
Old Source Packages for BioC 3.23	Source Archive