Uses of Interface
org.biojava.nbio.structure.align.multiple.BlockSet
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Packages that use BlockSet Package Description org.biojava.nbio.structure.align.multiple org.biojava.nbio.structure.align.xml Serialization and deserialization for structure alignment results (as AFPChain object) to XML. -
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Uses of BlockSet in org.biojava.nbio.structure.align.multiple
Classes in org.biojava.nbio.structure.align.multiple that implement BlockSet Modifier and Type Class Description class
BlockSetImpl
A general implementation of a BlockSet to store a flexible part of a multiple alignment.Methods in org.biojava.nbio.structure.align.multiple that return BlockSet Modifier and Type Method Description BlockSet
BlockSet. clone()
Creates and returns an identical copy of this blockset, including a deep copy of all constituentBlock
s.BlockSet
Block. getBlockSet()
Returns the parent BlockSet of the Block.BlockSet
BlockImpl. getBlockSet()
BlockSet
MultipleAlignment. getBlockSet(int index)
Returns the BlockSet with the specified index of the MultipleAlignment.BlockSet
MultipleAlignmentImpl. getBlockSet(int index)
Methods in org.biojava.nbio.structure.align.multiple that return types with arguments of type BlockSet Modifier and Type Method Description List<BlockSet>
MultipleAlignment. getBlockSets()
Returns the BlockSet List of the multiple structure alignment.List<BlockSet>
MultipleAlignmentImpl. getBlockSets()
Methods in org.biojava.nbio.structure.align.multiple with parameters of type BlockSet Modifier and Type Method Description void
Block. setBlockSet(BlockSet parent)
Set the back-reference to its parent BlockSet.void
BlockImpl. setBlockSet(BlockSet parent)
Method parameters in org.biojava.nbio.structure.align.multiple with type arguments of type BlockSet Modifier and Type Method Description void
MultipleAlignment. setBlockSets(List<BlockSet> blockSets)
Sets the List of BlockSet List of the specified alignment.void
MultipleAlignmentImpl. setBlockSets(List<BlockSet> blockSets)
Constructors in org.biojava.nbio.structure.align.multiple with parameters of type BlockSet Constructor Description BlockImpl(BlockSet blockSet)
Constructor. -
Uses of BlockSet in org.biojava.nbio.structure.align.xml
Methods in org.biojava.nbio.structure.align.xml that return BlockSet Modifier and Type Method Description static BlockSet
MultipleAlignmentXMLParser. parseBlockSet(Node root, MultipleAlignment msa)
Methods in org.biojava.nbio.structure.align.xml with parameters of type BlockSet Modifier and Type Method Description static Block
MultipleAlignmentXMLParser. parseBlock(Node root, BlockSet blockSet)
static void
MultipleAlignmentXMLConverter. printXMLblockSet(PrettyXMLWriter xml, BlockSet bs)
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