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MAEPlugin.analysis.* (3)MAEPlugin.connection.* (1)MAEPlugin.popup.* (3)

MAEPlugin: Javadoc index of package MAEPlugin.


Package Samples:

MAEPlugin.analysis
MAEPlugin.connection
MAEPlugin.popup

Classes:

AnalysisPlugin: This class is the analysis MAEPlugin base class and is used to implement specialized base classes based on CheckBoxMenuPlugin. These include: GeneClassPlugin - manipulate Gene Sets NormalizationPlugin - normalize spot data between array samples FilterPlugin - gene data filter for inclusion in data Filter chain PlotPlugin - plot method ClusterPlugin - cluster method ReportPlugin - report method Created on September 5, 2001, 6:13 PM This work was produced by Peter Lemkin of the National Cancer Institute, an agency of the United States Government. As a work of the United States Government there is ...
NormalizationPlugin: This class extends the analysis MAEPlugin base class to implement the Normalization base class. The "active normalization" is a static reference that all Normalization classes share. Whichever one is active will be the one used. Created on September 7, 2001, 5:46 PM This work was produced by Peter Lemkin of the National Cancer Institute, an agency of the United States Government. As a work of the United States Government there is no associated copyright. It is offered as open source software under the Mozilla Public License (version 1.1) subject to the limitations noted in the accompanying LEGAL ...
FilterPlugin: This class is the filter MAEPlugin base class and is be used to implement a filter base class: Users must implement pluginInit() and geneOperation(). Users MAY overide resetPipeline() and finishPipeline(). Created on September 5, 2001, 6:13 PM, Jai Evans This work was produced by Peter Lemkin of the National Cancer Institute, an agency of the United States Government. As a work of the United States Government there is no associated copyright. It is offered as open source software under the Mozilla Public License (version 1.1) subject to the limitations noted in the accompanying LEGAL file. This ...
JarResources: JarResources: JarResources maps all resources included in a Zip or Jar file. Additionaly, it provides a method to extract one as a blob. This is generic Java code taken from various sources and modified. This work was produced by Peter Lemkin of the National Cancer Institute, an agency of the United States Government. As a work of the United States Government there is no associated copyright. It is offered as open source software under the Mozilla Public License (version 1.1) subject to the limitations noted in the accompanying LEGAL file. This notice must be included with the code. The MAExplorer ...
PluginLoader: This class contains the dynamic MAEplugin loader. It will load either .jar or .class files (the latter is useful for debugging since no jar packaging is required). This work was produced by Peter Lemkin of the National Cancer Institute, an agency of the United States Government. As a work of the United States Government there is no associated copyright. It is offered as open source software under the Mozilla Public License (version 1.1) subject to the limitations noted in the accompanying LEGAL file. This notice must be included with the code. The MAExplorer Mozilla and Legal files are available ...
MAEStub: This interface Enforces MAE compliance with Plugin requirements. It provides hooks into scattered parts of MAE. Created on September 6, 2001, 8:28 AM This work was produced by Peter Lemkin of the National Cancer Institute, an agency of the United States Government. As a work of the United States Government there is no associated copyright. It is offered as open source software under the Mozilla Public License (version 1.1) subject to the limitations noted in the accompanying LEGAL file. This notice must be included with the code. The MAExplorer Mozilla and Legal files are available on http://maexplorer ...
PluginStub: Enforces method implementations in suport of MAEPlugin. Provides bean-like interface for the plugins. Created on September 6, 2001, 8:28 AM This work was produced by Peter Lemkin of the National Cancer Institute, an agency of the United States Government. As a work of the United States Government there is no associated copyright. It is offered as open source software under the Mozilla Public License (version 1.1) subject to the limitations noted in the accompanying LEGAL file. This notice must be included with the code. The MAExplorer Mozilla and Legal files are available on http://maexplorer.sourceforge ...
ConnectionPlugin: This class is the connection MAEPlugin base class and is be used to implement a connection base class. Created on September 5, 2001, 6:16 PM This work was produced by Peter Lemkin of the National Cancer Institute, an agency of the United States Government. As a work of the United States Government there is no associated copyright. It is offered as open source software under the Mozilla Public License (version 1.1) subject to the limitations noted in the accompanying LEGAL file. This notice must be included with the code. The MAExplorer Mozilla and Legal files are available on http://maexplorer ...
CheckBoxMenuPlugin: This class extends the MAEPlugin base class to implement a CheckBoxMenuPlugin base class. Created on September 10, 2001, 7:59 AM This work was produced by Peter Lemkin of the National Cancer Institute, an agency of the United States Government. As a work of the United States Government there is no associated copyright. It is offered as open source software under the Mozilla Public License (version 1.1) subject to the limitations noted in the accompanying LEGAL file. This notice must be included with the code. The MAExplorer Mozilla and Legal files are available on http://maexplorer.sourceforge ...
JarClassLoader: JarClassLoader provides a minimalistic ClassLoader which shows how to instantiate a class which resides in a .jar file. This work was produced by Peter Lemkin of the National Cancer Institute, an agency of the United States Government. As a work of the United States Government there is no associated copyright. It is offered as open source software under the Mozilla Public License (version 1.1) subject to the limitations noted in the accompanying LEGAL file. This notice must be included with the code. The MAExplorer Mozilla and Legal files are available on http://maexplorer.sourceforge.net/.
MAEPlugin: This abstract class defines the base MAEPlugin base class. Created on September 5, 2001, 5:26 PM This work was produced by Peter Lemkin of the National Cancer Institute, an agency of the United States Government. As a work of the United States Government there is no associated copyright. It is offered as open source software under the Mozilla Public License (version 1.1) subject to the limitations noted in the accompanying LEGAL file. This notice must be included with the code. The MAExplorer Mozilla and Legal files are available on http://maexplorer.sourceforge.net/.
DuplicatePluginLoadException: This exception is used to allow self registering of plugins for a max number of plugins. This work was produced by Peter Lemkin of the National Cancer Institute, an agency of the United States Government. As a work of the United States Government there is no associated copyright. It is offered as open source software under the Mozilla Public License (version 1.1) subject to the limitations noted in the accompanying LEGAL file. This notice must be included with the code. The MAExplorer Mozilla and Legal files are available on http://maexplorer.sourceforge.net/.
MaxNumberPluginsException: This exception is used to allow self registering of plugins for a max number of plugins. This work was produced by Peter Lemkin of the National Cancer Institute, an agency of the United States Government. As a work of the United States Government there is no associated copyright. It is offered as open source software under the Mozilla Public License (version 1.1) subject to the limitations noted in the accompanying LEGAL file. This notice must be included with the code. The MAExplorer Mozilla and Legal files are available on http://maexplorer.sourceforge.net/.
PluginException: This exception is used to allow self registering of plugins for a max number of plugins. This work was produced by Peter Lemkin of the National Cancer Institute, an agency of the United States Government. As a work of the United States Government there is no associated copyright. It is offered as open source software under the Mozilla Public License (version 1.1) subject to the limitations noted in the accompanying LEGAL file. This notice must be included with the code. The MAExplorer Mozilla and Legal files are available on http://maexplorer.sourceforge.net/.
MenuPlugin: This abstract class defines MenuPlugin class. Created on September 10, 2001, 8:00 AM This work was produced by Peter Lemkin of the National Cancer Institute, an agency of the United States Government. As a work of the United States Government there is no associated copyright. It is offered as open source software under the Mozilla Public License (version 1.1) subject to the limitations noted in the accompanying LEGAL file. This notice must be included with the code. The MAExplorer Mozilla and Legal files are available on http://maexplorer.sourceforge.net/.
PopupPlugin: This class is used for creating popup plugins. Created on September 5, 2001, 6:21 PM This work was produced by Peter Lemkin of the National Cancer Institute, an agency of the United States Government. As a work of the United States Government there is no associated copyright. It is offered as open source software under the Mozilla Public License (version 1.1) subject to the limitations noted in the accompanying LEGAL file. This notice must be included with the code. The MAExplorer Mozilla and Legal files are available on http://maexplorer.sourceforge.net/.
FileClassLoader: Class to dynamic classes from local disks. This allows plugins to be loaded. This work was produced by Peter Lemkin of the National Cancer Institute, an agency of the United States Government. As a work of the United States Government there is no associated copyright. It is offered as open source software under the Mozilla Public License (version 1.1) subject to the limitations noted in the accompanying LEGAL file. This notice must be included with the code. The MAExplorer Mozilla and Legal files are available on http://maexplorer.sourceforge.net/.
PluginUnLoader: This class contains the dynamic MAEplugin unloader for .jar files This work was produced by Peter Lemkin of the National Cancer Institute, an agency of the United States Government. As a work of the United States Government there is no associated copyright. It is offered as open source software under the Mozilla Public License (version 1.1) subject to the limitations noted in the accompanying LEGAL file. This notice must be included with the code. The MAExplorer Mozilla and Legal files are available on http://maexplorer.sourceforge.net/.
PluginFilenameFilter: Class Filename filter for class files. This work was produced by Peter Lemkin of the National Cancer Institute, an agency of the United States Government. As a work of the United States Government there is no associated copyright. It is offered as open source software under the Mozilla Public License (version 1.1) subject to the limitations noted in the accompanying LEGAL file. This notice must be included with the code. The MAExplorer Mozilla and Legal files are available on http://maexplorer.sourceforge.net/.
Normalization

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