BiocCheck

This package is for version 3.19 of Bioconductor; for the stable, up-to-date release version, see BiocCheck.

Bioconductor-specific package checks

Bioconductor version: 3.19

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] , Leonardo Collado-Torres [ctb], Federico Marini [ctb]

Maintainer: Marcel Ramos <marcel.ramos at roswellpark.org>

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

Installation

To install this package, start R (version "4.4") 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 1.40.0

In Bioconductor since BioC 2.14 (R-3.1) (10.5 years)

License Artistic-2.0

Depends R (>= 4.3.0)

Imports BiocBaseUtils, BiocFileCache, BiocManager, biocViews(>= 1.33.7), callr, 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 RUnit, BiocGenerics, Biobase, jsonlite, rmarkdown, downloader, devtools (>= 1.4.1), usethis, BiocStyle, GenomicRanges, gert

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_1.40.0.tar.gz

Windows Binary (x86_64) BiocCheck_1.40.0.zip

macOS Binary (x86_64) BiocCheck_1.40.0.tgz

macOS Binary (arm64) BiocCheck_1.40.0.tgz

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