AnnotationForge
Tools for building SQLite-based annotation data packages
Bioconductor version: Release (3.19)
Provides code for generating Annotation packages and their databases. Packages produced are intended to be used with AnnotationDbi.
Author: Marc Carlson [aut], Hervé Pagès [aut], Madelyn Carlson [ctb] ('Creating probe packages' vignette translation from Sweave to Rmarkdown / HTML), Bioconductor Package Maintainer [cre]
Maintainer: Bioconductor Package Maintainer <maintainer at bioconductor.org>
citation("AnnotationForge")):
Installation
To install this package, start R (version "4.4") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("AnnotationForge")
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("AnnotationForge")| AnnotationForge: Creating select Interfaces for custom Annotation resources | R Script | |
| Creating probe packages | HTML | R Script |
| Making New Organism Packages | HTML | R Script |
| SQLForge: An easy way to create a new annotation package with a standard database schema. | R Script | |
| Reference Manual | ||
| NEWS | Text |
Details
| biocViews | Annotation, Infrastructure, Software |
| Version | 1.46.0 |
| In Bioconductor since | BioC 2.11 (R-2.15) (12 years) |
| License | Artistic-2.0 |
| Depends | R (>= 3.5.0), methods, utils, BiocGenerics(>= 0.15.10), Biobase(>= 1.17.0), AnnotationDbi(>= 1.33.14) |
| Imports | DBI, RSQLite, XML, S4Vectors, RCurl |
| System Requirements | |
| URL | https://bioconductor.org/packages/AnnotationForge |
| Bug Reports | https://github.com/Bioconductor/AnnotationForge/issues |
See More
| Suggests | biomaRt, httr, GenomeInfoDb(>= 1.17.1), Biostrings, affy, hgu95av2.db, human.db0, org.Hs.eg.db, Homo.sapiens, GO.db, markdown, BiocStyle, knitr, BiocManager, BiocFileCache, RUnit |
| Linking To | |
| Enhances | |
| Depends On Me | |
| Imports Me | AnnotationHubData, GOstats, ViSEAGO, GGHumanMethCancerPanelv1.db |
| Suggests Me | AnnotationDbi, AnnotationHub |
| Links To Me | |
| Build Report | Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
| Source Package | AnnotationForge_1.46.0.tar.gz |
| Windows Binary (x86_64) | AnnotationForge_1.46.0.zip |
| macOS Binary (x86_64) | AnnotationForge_1.46.0.tgz |
| macOS Binary (arm64) | AnnotationForge_1.46.0.tgz |
| Source Repository | git clone https://git.bioconductor.org/packages/AnnotationForge |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/AnnotationForge |
| Bioc Package Browser | https://code.bioconductor.org/browse/AnnotationForge/ |
| Package Short Url | https://bioconductor.org/packages/AnnotationForge/ |
| Package Downloads Report | Download Stats |