Package org.forester.sdi
Class SDIutil
- java.lang.Object
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- org.forester.sdi.SDIutil
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public class SDIutil extends java.lang.Object
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Nested Class Summary
Nested Classes Modifier and Type Class Description static class
SDIutil.ALGORITHM
static class
SDIutil.TaxonomyComparisonBase
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Constructor Summary
Constructors Constructor Description SDIutil()
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Method Summary
All Methods Static Methods Concrete Methods Modifier and Type Method Description static SDIutil.TaxonomyComparisonBase
determineTaxonomyComparisonBase(Phylogeny gene_tree)
static Phylogeny
parseSpeciesTree(Phylogeny gene_tree, java.io.File species_tree_file, boolean replace_undescores_in_nhx_trees, boolean ignore_quotes_in_nhx_trees, NHXParser.TAXONOMY_EXTRACTION taxonomy_extraction_in_nhx_trees)
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Method Detail
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determineTaxonomyComparisonBase
public static final SDIutil.TaxonomyComparisonBase determineTaxonomyComparisonBase(Phylogeny gene_tree) throws SDIException
- Throws:
SDIException
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parseSpeciesTree
public static final Phylogeny parseSpeciesTree(Phylogeny gene_tree, java.io.File species_tree_file, boolean replace_undescores_in_nhx_trees, boolean ignore_quotes_in_nhx_trees, NHXParser.TAXONOMY_EXTRACTION taxonomy_extraction_in_nhx_trees) throws java.io.FileNotFoundException, PhyloXmlDataFormatException, java.io.IOException, SDIException
- Throws:
java.io.FileNotFoundException
PhyloXmlDataFormatException
java.io.IOException
SDIException
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