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java.lang.Objectorg.biomage.HigherLevelAnalysis.HigherLevelAnalysis_package
public class HigherLevelAnalysis_package
Describes the results of performing analysis on the result of the BioAssayData from an Experiment.
Nested Class Summary | |
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class |
HigherLevelAnalysis_package.BioAssayDataCluster_list
Inner list class for holding multiple entries for attribute bioAssayDataCluster. |
Field Summary | |
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HigherLevelAnalysis_package.BioAssayDataCluster_list |
bioAssayDataCluster_list
A mathematical method of higher level analysis whereby BioAssayData are grouped together into nodes. |
Constructor Summary | |
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HigherLevelAnalysis_package()
Default constructor. |
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HigherLevelAnalysis_package(org.xml.sax.Attributes atts)
Attribute constructor. |
Method Summary | |
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void |
addToBioAssayDataCluster_list(BioAssayDataCluster bioAssayDataCluster)
Method to add BioAssayDataCluster to BioAssayDataCluster_list |
void |
addToBioAssayDataCluster_list(int position,
BioAssayDataCluster bioAssayDataCluster)
Method to add BioAssayDataCluster at position to BioAssayDataCluster_list |
boolean |
emptyMAGEobject()
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HigherLevelAnalysis_package.BioAssayDataCluster_list |
getBioAssayDataCluster_list()
Get method for bioAssayDataCluster_list |
BioAssayDataCluster |
getFromBioAssayDataCluster_list(int position)
Method to get BioAssayDataCluster from BioAssayDataCluster_list |
java.lang.String |
getModelClassName()
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void |
removeElementAtFromBioAssayDataCluster_list(int position)
Method to remove by position from BioAssayDataCluster_list |
void |
removeFromBioAssayDataCluster_list(BioAssayDataCluster bioAssayDataCluster)
Method to remove first BioAssayDataCluster from BioAssayDataCluster_list |
void |
setBioAssayDataCluster_list(HigherLevelAnalysis_package.BioAssayDataCluster_list bioAssayDataCluster_list)
Set method for bioAssayDataCluster_list |
void |
writeAssociations(java.io.Writer out)
writeAssociations This method is responsible for assembling the association data into XML. |
void |
writeAttributes(java.io.Writer out)
writeAttributes This method is responsible for assembling the attribute data into XML. |
void |
writeMAGEML(java.io.Writer out)
writeMAGEML This method is responsible for assembling the attribute and association data into XML. |
Methods inherited from class java.lang.Object |
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clone, equals, finalize, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait |
Field Detail |
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public HigherLevelAnalysis_package.BioAssayDataCluster_list bioAssayDataCluster_list
Constructor Detail |
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public HigherLevelAnalysis_package()
public HigherLevelAnalysis_package(org.xml.sax.Attributes atts)
atts:
- the attribute list.Method Detail |
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public void writeMAGEML(java.io.Writer out) throws java.io.IOException
java.io.IOException
public boolean emptyMAGEobject()
public void writeAttributes(java.io.Writer out) throws java.io.IOException
java.io.IOException
public void writeAssociations(java.io.Writer out) throws java.io.IOException
java.io.IOException
public java.lang.String getModelClassName()
public void setBioAssayDataCluster_list(HigherLevelAnalysis_package.BioAssayDataCluster_list bioAssayDataCluster_list)
value
- to setpublic HigherLevelAnalysis_package.BioAssayDataCluster_list getBioAssayDataCluster_list()
public void addToBioAssayDataCluster_list(BioAssayDataCluster bioAssayDataCluster)
public void addToBioAssayDataCluster_list(int position, BioAssayDataCluster bioAssayDataCluster)
public BioAssayDataCluster getFromBioAssayDataCluster_list(int position)
public void removeElementAtFromBioAssayDataCluster_list(int position)
public void removeFromBioAssayDataCluster_list(BioAssayDataCluster bioAssayDataCluster)
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