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pdInfoBuilder

This is the development version of pdInfoBuilder; for the stable release version, see pdInfoBuilder.

Platform Design Information Package Builder


Bioconductor version: Development (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")

# The following initializes usage of Bioc devel
BiocManager::install(version='devel')

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 1.67.0
In Bioconductor since BioC 2.0 (R-2.5) (17 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)
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Package Archives

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

Source Package pdInfoBuilder_1.67.0.tar.gz
Windows Binary pdInfoBuilder_1.67.0.zip
macOS Binary (x86_64) pdInfoBuilder_1.67.0.tgz
macOS Binary (arm64) pdInfoBuilder_1.67.0.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