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CAFE

This package is for version 3.10 of Bioconductor; for the stable, up-to-date release version, see CAFE.

Chromosmal Aberrations Finder in Expression data


Bioconductor version: 3.10

Detection and visualizations of gross chromosomal aberrations using Affymetrix expression microarrays as input

Author: Sander Bollen

Maintainer: Sander Bollen <sander.h.bollen at gmail.com>

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

Installation

To install this package, start R (version "3.6") and enter: 


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

BiocManager::install("CAFE")

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("CAFE")
Manual PDF R Script
Reference Manual PDF
NEWS Text

Need some help? Ask on the Bioconductor Support site!

Details

biocViews GeneExpression, GeneSetEnrichment, Microarray, OneChannel, Software
Version 1.22.0
In Bioconductor since BioC 2.14 (R-3.1) (10 years)
License GPL-3
Depends R (>= 2.10), biovizBase, GenomicRanges, IRanges, ggbio
Imports affy, ggplot2, annotate, grid, gridExtra, tcltk, Biobase
System Requirements
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Suggests RUnit, BiocGenerics, BiocStyle
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Package Archives

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

Source Package CAFE_1.22.0.tar.gz
Windows Binary CAFE_1.22.0.zip (32- & 64-bit)
Mac OS X 10.11 (El Capitan) CAFE_1.22.0.tgz
Source Repository git clone https://git.bioconductor.org/packages/CAFE
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/CAFE
Bioc Package Browser https://code.bioconductor.org/browse/CAFE/
Package Short Url https://bioconductor.org/packages/CAFE/
Package Downloads Report Download Stats
Old Source Packages for BioC 3.10 Source Archive