broad.pda.geneexpression.clustering.HierarchicalClustering Class Reference

Collaboration diagram for broad.pda.geneexpression.clustering.HierarchicalClustering:

Public Member Functions
	HierarchicalClustering (MatrixWithHeaders data)
	HierarchicalClustering (MatrixWithHeaders data1, Map< String, Collection< String >> columnGroups, Map< String, Collection< String >> rowGroups)
void	write (String save) throws IOException
void	setClusterDistanceFunction (ClusterDistanceFunction distanceFunction) throws IllegalArgumentException
void	setClusterDistanceFunction (String distanceFunctionName)
void	setLinkage (String linkage) throws IllegalArgumentException
void	cluster (boolean clusterRow, boolean clusterColumn)
MatrixWithHeaders	getMatrix ()

Static Public Member Functions
static void	main (String[] args) throws IOException, ParseException

Constructor & Destructor Documentation

broad.pda.geneexpression.clustering.HierarchicalClustering.HierarchicalClustering

(

MatrixWithHeaders

data

)

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broad.pda.geneexpression.clustering.HierarchicalClustering.HierarchicalClustering	(	MatrixWithHeaders	data1,
		Map< String, Collection< String >>	columnGroups,
		Map< String, Collection< String >>	rowGroups
	)

Member Function Documentation

void broad.pda.geneexpression.clustering.HierarchicalClustering.cluster	(	boolean	clusterRow,
		boolean	clusterColumn
	)

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MatrixWithHeaders broad.pda.geneexpression.clustering.HierarchicalClustering.getMatrix

(

)

static void broad.pda.geneexpression.clustering.HierarchicalClustering.main ( String[]  args ) throws IOException, ParseException

static

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void broad.pda.geneexpression.clustering.HierarchicalClustering.setClusterDistanceFunction

(

ClusterDistanceFunction

distanceFunction

)

throws IllegalArgumentException

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void broad.pda.geneexpression.clustering.HierarchicalClustering.setClusterDistanceFunction

(

String

distanceFunctionName

)

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void broad.pda.geneexpression.clustering.HierarchicalClustering.setLinkage

(

String

linkage

)

throws IllegalArgumentException

void broad.pda.geneexpression.clustering.HierarchicalClustering.write

(

String

save

)

throws IOException

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The documentation for this class was generated from the following file:

• java/broad/pda/geneexpression/clustering/HierarchicalClustering.java