Software Acknowledgements

From GeneSetEnrichmentAnalysisWiki

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<p>GSEA implementations use many software tools and libraries, several of which are open source or freely available. Our thanks to their developers.</p>
<p>GSEA implementations use many software tools and libraries, several of which are open source or freely available. Our thanks to their developers.</p>
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             <td width="28%" style="padding: 0.75pt; width: 28%; height: 73.5pt;">Jide Software</td>
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             <td width="34%" style="padding: 0.75pt; width: 34%; height: 73.5pt;">Java/Swing components</td>
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<a href="http://www.jidesoft.com jidesoft.com">Jide Software</a></td>
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             <td width="40%" style="padding: 0.75pt; width: 40%; height: 73.5pt;">[http://www.jidesoft.com jidesoft.com]</td>
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             <td>Java/Swing components</td>
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<a href="http://www.oracle.com/technetwork/java/index.html http://www.oracle.com/technetwork/java/index.html">The Java 2 Platform<br>
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[[image:duke.gif]]</td>
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            <td>Language that the GSEA desktop application is written in</td>
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             <td width="28%" style="padding: 0.75pt; width: 28%; height: 73.5pt;">The Java 2 Platform<br>[[image:duke.gif]]</td>
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            <td width="34%" style="padding: 0.75pt; width: 34%; height: 73.5pt;">Language that the GSEA desktop application is written in</td>
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<a href="http://www.r-project.org/index.html www.r-project.org">The R programming language</a><br>
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            <td width="40%" style="padding: 0.75pt; width: 40%; height: 73.5pt;">[http://www.oracle.com/technetwork/java/index.html http://www.oracle.com/technetwork/java/index.html]</td>
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[[image:Rlogo.jpg]]</td>
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             <td>Language that the GSEAP-P-R is written in</td>
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            <td width="28%" style="padding: 0.75pt; width: 28%; height: 84pt;">The R programming language<br>[[image:Rlogo.jpg]]</td>
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             <td width="34%" style="padding: 0.75pt; width: 34%; height: 84pt;">Language that the GSEAP-P-R is written in</td>
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             <td>Intellij IDEA<br>[[image:idea.png]]</td>
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            <td width="40%" style="padding: 0.75pt; width: 40%; height: 84pt;">[http://www.r-project.org/index.html www.r-project.org]</td>
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             <td>An awesome integrated development environment for Java</td>
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             <td>[http://www.intellij.com/idea/ www.intellij.com/idea]</td>
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             <td width="28%" style="padding: 0.75pt; width: 28%; height: 64.5pt;">Intellij IDEA<br>[[image:idea.png]]</td>
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             <td width="34%" style="padding: 0.75pt; width: 34%; height: 64.5pt;">An awesome integrated development environment for Java</td>
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             <td width="40%" style="padding: 0.75pt; width: 40%; height: 64.5pt;">[http://www.intellij.com/idea/ www.intellij.com/idea]</td>
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             <td>JGoodies</td>
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            <p><font size="3">JGoodies</font></p>
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             <td>Forms layout and java look and feel</td>
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             <td>[http://www.jgoodies.com/ www.jgoodies.com]</td>
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            <p><font size="3">Forms layout and java look and feel</font></p>
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            <p><font size="3">[http://www.jgoodies.com/ </font><font size="3">www.jgoodies.com</font><font size="3">]</font></p>
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Revision as of 19:06, 16 October 2012

<a href="http://www.broadinstitute.org/gsea/">GSEA Home</a> | <a href="http://www.broadinstitute.org/gsea/downloads.jsp">Downloads</a> | <a href="http://www.broadinstitute.org/gsea/msigdb/">Molecular Signatures Database</a> | <a href="http://www.broadinstitute.org/cancer/software/gsea/wiki/index.php/Main_Page">Documentation</a> | <a href="http://www.broadinstitute.org/gsea/contact.jsp">Contact</a>

GSEA implementations use many software tools and libraries, several of which are open source or freely available. Our thanks to their developers.

<tbody> </tbody>
<a href="http://www.jidesoft.com jidesoft.com">Jide Software</a> Java/Swing components

<a href="http://www.oracle.com/technetwork/java/index.html http://www.oracle.com/technetwork/java/index.html">The Java 2 Platform

image:duke.gif
Language that the GSEA desktop application is written in

<a href="http://www.r-project.org/index.html www.r-project.org">The R programming language</a>

image:Rlogo.jpg
Language that the GSEAP-P-R is written in
Intellij IDEA
image:idea.png
An awesome integrated development environment for Java www.intellij.com/idea
JGoodies Forms layout and java look and feel www.jgoodies.com

foxtrot

Java event handling mechanism for GUI's.

 foxtrot.sourceforge.net 

dom4j

XML Parser

www.dom4j.org 

itext

image:itext.gif

Java PDF library

www.lowagie.com/iText

Jakarta POI

(especially HSSF)

image: poi-logo.png

Java excel reporting

jakarta.apache.org/poi 

JFreeChart

image: jfreechart.png

Graphing library for Java

www.object-refinery.com/jfreechart 

JUnit

image: junit.gif

Unit testing API

www.junit.org 

log4j

image:log4j.jpg

Logging toolkit for Java

jakarta.apache.org/log4j 

Oro

Regular expressions library in Java

jakarta.apache.org/oro 

Trove

High performance collections library from GNU

trove4j.sourceforge.net 

ECS

Element construction set (a HTML tag library from Apache  <st1:place w:st="on"><st1:city w:st="on">Jakarta</st1:city></st1:place>)

jakarta.apache.org

Xenu link sleuth

Website broken link checker

home.snafu.de/tilman/xenulink

Personal tools