# Categorized views of R package repositories

## Documentation for package ‘biocViews’ version 1.80.0

- DESCRIPTION file
- User guides, package vignettes and other documentation
- Package NEWS
- Package README

## Help Pages

biocViews-package | Categorized views of R package repositories
BiocView-class | Class "BiocView"
biocViews | Categorized views of R package repositories
biocViewsVocab | Bioconductor Task Views Vocabulary Data
build-dbs | Helper functions to generate HTML pages for reference manuals
build_db_from_source | Helper functions to generate HTML pages for reference manuals
build_meta_aliases_db | Helper functions to generate HTML pages for reference manuals
build_meta_rdxrefs_db | Helper functions to generate HTML pages for reference manuals
bvPackageTable-class | Class "BiocView"
bvParentViews-class | Class "BiocView"
bvSubViews-class | Class "BiocView"
bvTitle-class | Class "BiocView"
coerce-method | Class "BiocView"
dump_concept | produce character stream for use with Protege entities/class hierarchy ingestion based on biocViews subgraphs
extractCitations | Extract Rd man pages and build pdf reference manuals from local package repository
extractHTMLDocuments | Extract pdf vignettes from local package repository
extractManuals | Extract Rd man pages and build pdf reference manuals from local package repository
extractNEWS | Extract NEWS files from source package tarballs
extractTopLevelFiles | Extract files from the top level of source package tarballs
extractVignettes | Extract pdf vignettes from local package repository
genReposControlFiles | Generate CRAN-style repository control files
getBiocSubViews | Build a list of BiocView objects from a package repository
getBiocViews | Build a list of BiocView objects from a package repository
getCurrentbiocViews | Get a list of biocViews for each branch
getPackageDescriptions | Retrieve list of package titles and print package Description
getPackageNEWS | Retrieve and print package NEWS
getPackageTitles | Retrieve list of package titles and print package Description
getPacksAndViews | Parse VIEWS file for views and packages
getSubTerms | Retrieve a term and its children from a vocab DAG
guessPackageType | Guess Package Type (Software, ExperimentData, AnnotationData) using existing biocViews.
htmlDoc | Create a complete HTML document representation of an object
htmlDoc-method | Class "BiocView"
htmlDoc-method | Class "Htmlized"
htmlDoc-method | Class "PackageDetail"
htmlDoc-method | Class "RepositoryDetail"
htmlFilename | Return a filename for an object's HTML representation
htmlFilename-method | Class "BiocView"
htmlFilename-method | Class "PackageDetail"
htmlFilename-method | Class "RepositoryDetail"
htmlFilename-method | Return a filename for an object's HTML representation
Htmlized-class | Class "Htmlized"
htmlValue | HTML Representation of an Object
htmlValue-method | Class "BiocView"
htmlValue-method | Class "PackageDetail"
htmlValue-method | Class "RepositoryDetail"
makeVocInfo | Parse VIEWS file for views and packages
PackageDetail-class | Class "PackageDetail"
pdAuthorMaintainerInfo-class | Class "PackageDetail"
pdDescriptionInfo-class | Class "PackageDetail"
pdDetailsInfo-class | Class "PackageDetail"
pdDownloadInfo-class | Class "PackageDetail"
pdVignetteInfo-class | Class "PackageDetail"
pdVigsAndDownloads-class | Class "PackageDetail"
permulist | Parse VIEWS file for views and packages
printNEWS | Retrieve and print package NEWS
pump | Parse VIEWS file for views and packages
rdPackageTable-class | Class "RepositoryDetail"
recommendBiocViews | Recommend biocViews for an existing Package.
recommendPackages | Recommend Packages using existing biocViews.
RepositoryDetail-class | Class "RepositoryDetail"
show-method | Class "BiocView"
tellSubTop | Parse VIEWS file for views and packages
tellSuperTop | Parse VIEWS file for views and packages
validate_bioc_views | Validate a package's biocViews.
validation_tests | Validate a package's biocViews.
writeBiocViews | Write a list of BiocView objects to HTML
writeHtmlDoc | Write an XML DOM containing HTML to a file
writePackageDetailHtml | Write HTML files for packages in a CRAN-style repository
writeRepositoryHtml | Write package descriptions and a repository index as HTML
writeRFilesFromVignettes | Write R files from vignettes
writeTopLevelView | Write the view for the root of a vocabulary to disk
write_REPOSITORY | Write a REPOSITORY control file for a CRAN-style package repository
write_SYMBOLS | Write a SYMBOLS file
write_VIEWS | Write a VIEWS control file for a CRAN-style package repository