Uses of Class
org.biojava.nbio.core.sequence.template.AbstractCompound
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Packages that use AbstractCompound Package Description org.biojava.nbio.alignment.io org.biojava.nbio.core.sequence.compound -
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Uses of AbstractCompound in org.biojava.nbio.alignment.io
Methods in org.biojava.nbio.alignment.io that return types with arguments of type AbstractCompound Modifier and Type Method Description List<AbstractSequence<? extends AbstractCompound>>
StockholmStructure. getBioSequences()
used to retrieve sequences from the structureList<AbstractSequence<? extends AbstractCompound>>
StockholmStructure. getBioSequences(boolean ignoreCase)
Because some database files have incorrectly small letters (e.g.List<AbstractSequence<? extends AbstractCompound>>
StockholmStructure. getBioSequences(boolean ignoreCase, String forcedSequenceType)
This function tolerates mixed case letters, and allows for forcing the output biosequence type (PFAM/RFAM). -
Uses of AbstractCompound in org.biojava.nbio.core.sequence.compound
Subclasses of AbstractCompound in org.biojava.nbio.core.sequence.compound Modifier and Type Class Description class
AminoAcidCompound
Used to describe an Amino Acid.class
CodonCompound
Define a codonclass
NucleotideCompound
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