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java.lang.Object | +--uk.ac.sanger.psu.gfmerge.analysis.simfeature_analysis.tools.TotalExonLengthAnalysisTools
class which contains computing tools for TotalExonLengthAnalysis.
Constructor Summary | |
TotalExonLengthAnalysisTools()
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Method Summary | |
private static java.util.HashMap |
getGmHashOfEqualGms(java.util.ArrayList _arrListOfGmRegions)
method which calculates hash of gene models pointing to number of equal gms (including the genemodel itself) |
private static java.util.HashMap |
getGmHashOfLocations(java.util.ArrayList _arrListOfGmRegions)
method which calculates hash of locations pointing to their array of gms with the same location (equal genemodels). |
static java.util.HashMap |
getTlExLengthScoredGmHash(int debug,
java.util.ArrayList _arrListOfGMRegions)
method which returns total exon length of a genemodel. |
private static double |
getTotalExonLengthScore(GeneModel gm,
java.util.HashMap gmHashOfEqualGms)
method which calculates score for a genemodel using the total exon length as scoring system. |
Methods inherited from class java.lang.Object |
clone, equals, finalize, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait |
Constructor Detail |
public TotalExonLengthAnalysisTools()
Method Detail |
public static java.util.HashMap getTlExLengthScoredGmHash(int debug, java.util.ArrayList _arrListOfGMRegions)
debug
- debugging mode_arrListOfGMRegions
- ArrayList of genemodel regions
private static double getTotalExonLengthScore(GeneModel gm, java.util.HashMap gmHashOfEqualGms)
gm
- genemodelgmHashOfEqualGms
- HashMap of genemodels pointing to the number
of equal genemodels (including the genemodel itself)
private static java.util.HashMap getGmHashOfEqualGms(java.util.ArrayList _arrListOfGmRegions)
_arrListOfGmRegions
- ArrayList of genemodel regions
private static java.util.HashMap getGmHashOfLocations(java.util.ArrayList _arrListOfGmRegions)
_arrListOfGmRegions
- ArrayList of genemodel regions
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