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java.lang.Objectorg.metaqtl.algo.MetaAlgorithm
org.metaqtl.algo.ClustAlgorithm
org.metaqtl.algo.QtlTreeAlgorithm
public class QtlTreeAlgorithm
This class defines methods to perform agglomerative hierarchical QTL clustering.
Field Summary | |
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int |
tree_method
This global variable defines the method used by the aglomerative hierarchical clustering. |
Fields inherited from class org.metaqtl.algo.ClustAlgorithm |
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chrName, chromosomes, missing_sd_mode, ontology, result, sd_mode |
Fields inherited from class org.metaqtl.algo.MetaAlgorithm |
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logger, loggerUp, workAmount, workProgress |
Constructor Summary | |
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QtlTreeAlgorithm(IBioGenome map,
IBioOntology ontology)
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Method Summary | |
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MetaQtlResult[] |
buildQtlTree(MetaQtlData data)
For the given data points this method build the tree which represents the hierarchical clustering. |
void |
run()
This method performs an agglomerative hierarchical QTL clustering on each chromosome and returns the result as a MetaQtlAnalysis
object. |
void |
setTreeMethod(int tree_method)
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Methods inherited from class org.metaqtl.algo.ClustAlgorithm |
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getResult, setCIMiss, setCIMode |
Methods inherited from class org.metaqtl.algo.MetaAlgorithm |
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disableLogger, getLogger, getWorkAmount, getWorkProgress, isLoggerEnable, setLogger, setLogger |
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 int tree_method
Constructor Detail |
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public QtlTreeAlgorithm(IBioGenome map, IBioOntology ontology)
Method Detail |
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public void run()
MetaQtlAnalysis
object.
To control the behaviour of the algorithm use the global variables
of the class.
map
- public MetaQtlResult[] buildQtlTree(MetaQtlData data)
data
- the QTK data points.
HClustAlgorithm
public void setTreeMethod(int tree_method)
centroid_method
-
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