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This package is deprecated. It will probably be removed from Bioconductor. Please refer to the package end-of-life guidelines for more information.

This package is for version 3.18 of Bioconductor. This package has been removed from Bioconductor. For the last stable, up-to-date release version, see gaggle.

Broadcast data between R and Gaggle

Bioconductor version: Release (3.18)

This package contains functions enabling data exchange between R and Gaggle enabled bioinformatics software, including Cytoscape, Firegoose and Gaggle Genome Browser.

Author: Paul Shannon <pshannon at systemsbiology.org>

Maintainer: Christopher Bare <cbare at systemsbiology.org>

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


To install this package, start R (version "4.3") and enter:

if (!require("BiocManager", quietly = TRUE))


For older versions of R, please refer to the appropriate Bioconductor release.


To view documentation for the version of this package installed in your system, start R and enter:

Gaggle Overview PDF R Script
Reference Manual PDF


biocViews Annotation, DataImport, GraphAndNetwork, Software, ThirdPartyClient, Visualization
Version 1.70.0
In Bioconductor since BioC 1.9 (R-2.4) (17.5 years)
License GPL version 2 or newer
Depends R (>= 2.3.0), rJava (>= 0.4), graph(>= 1.10.2), RUnit (>= 0.4.17)
System Requirements
URL http://gaggle.systemsbiology.net/docs/geese/r/
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Follow Installation instructions to use this package in your R session.

Source Package gaggle_1.70.0.tar.gz
Windows Binary gaggle_1.70.0.zip
macOS Binary (x86_64) gaggle_1.70.0.tgz
macOS Binary (arm64) gaggle_1.70.0.tgz
Source Repository git clone https://git.bioconductor.org/packages/gaggle
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/gaggle
Package Short Url https://bioconductor.org/packages/gaggle/
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