pdInfoBuilder

Platform Design Information Package Builder


Bioconductor version: Release (3.19)

Builds platform design information packages. These consist of a SQLite database containing feature-level data such as x, y position on chip and featureSet ID. The database also incorporates featureSet-level annotation data. The products of this packages are used by the oligo pkg.

Author: Seth Falcon, Vince Carey, Matt Settles, Kristof de Beuf, Benilton Carvalho

Maintainer: Benilton Carvalho <benilton at unicamp.br>

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

Installation

To install this package, start R (version "4.4") and enter:


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

BiocManager::install("pdInfoBuilder")

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("pdInfoBuilder")
Building Annotation Packages with pdInfoBuilder for Use with the oligo Package PDF
PDInfo Package Building Affymetrix Mapping Chips PDF R Script
Reference Manual PDF
NEWS Text

Details

biocViews Annotation, Infrastructure, Software
Version 1.68.0
In Bioconductor since BioC 2.0 (R-2.5) (17.5 years)
License Artistic-2.0
Depends R (>= 3.2.0), methods, Biobase(>= 2.27.3), RSQLite (>= 1.0.0), affxparser(>= 1.39.4), oligo(>= 1.31.5)
Imports Biostrings(>= 2.35.12), BiocGenerics(>= 0.13.11), DBI (>= 0.3.1), IRanges(>= 2.1.43), oligoClasses(>= 1.29.6), S4Vectors(>= 0.5.22)
System Requirements
URL
See More
Suggests
Linking To
Enhances
Depends On Me
Imports Me
Suggests Me maqcExpression4plex, aroma.affymetrix, maGUI
Links To Me
Build Report Build Report

Package Archives

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

Source Package pdInfoBuilder_1.68.0.tar.gz
Windows Binary (x86_64) pdInfoBuilder_1.68.0.zip
macOS Binary (x86_64) pdInfoBuilder_1.68.0.tgz
macOS Binary (arm64) pdInfoBuilder_1.68.0.tgz
Source Repository git clone https://git.bioconductor.org/packages/pdInfoBuilder
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/pdInfoBuilder
Bioc Package Browser https://code.bioconductor.org/browse/pdInfoBuilder/
Package Short Url https://bioconductor.org/packages/pdInfoBuilder/
Package Downloads Report Download Stats