public class SDIutil
extends java.lang.Object
Modifier and Type | Class and Description |
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static class |
SDIutil.ALGORITHM |
static class |
SDIutil.TaxonomyComparisonBase |
Constructor and Description |
---|
SDIutil() |
Modifier and Type | Method and Description |
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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) |
public static final SDIutil.TaxonomyComparisonBase determineTaxonomyComparisonBase(Phylogeny gene_tree) throws SDIException
SDIException
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
java.io.FileNotFoundException
PhyloXmlDataFormatException
java.io.IOException
SDIException