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java.lang.Objectorg.biojava3.core.sequence.template.AbstractSequence<AminoAcidCompound>
org.biojava3.core.sequence.ProteinSequence
public class ProteinSequence
The representation of a ProteinSequence
Nested Class Summary |
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Nested classes/interfaces inherited from class org.biojava3.core.sequence.template.AbstractSequence |
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AbstractSequence.AnnotationType |
Constructor Summary | |
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ProteinSequence(ProxySequenceReader<AminoAcidCompound> proxyLoader)
A protein sequence where the storage of the sequence is somewhere else. |
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ProteinSequence(ProxySequenceReader<AminoAcidCompound> proxyLoader,
CompoundSet<AminoAcidCompound> compoundSet)
A protein sequence where the storage of the sequence is somewhere else with user defined set of amino acids. |
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ProteinSequence(String seqString)
Create a protein from a string |
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ProteinSequence(String seqString,
CompoundSet<AminoAcidCompound> compoundSet)
Create a protein from a string with a user defined set of amino acids |
Method Summary | |
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static void |
main(String[] args)
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void |
setParentDNASequence(AbstractSequence parentDNASequence,
Integer begin,
Integer end)
A Protein sequence can be stand alone or loaded from a transcript sequence. |
Methods inherited from class java.lang.Object |
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clone, equals, finalize, getClass, hashCode, notify, notifyAll, wait, wait, wait |
Constructor Detail |
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public ProteinSequence(String seqString)
seqString
- public ProteinSequence(String seqString, CompoundSet<AminoAcidCompound> compoundSet)
seqString
- compoundSet
- public ProteinSequence(ProxySequenceReader<AminoAcidCompound> proxyLoader)
proxyLoader
- public ProteinSequence(ProxySequenceReader<AminoAcidCompound> proxyLoader, CompoundSet<AminoAcidCompound> compoundSet)
proxyLoader
- Method Detail |
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public void setParentDNASequence(AbstractSequence parentDNASequence, Integer begin, Integer end)
parentDNASequence
- begin
- end
- public static void main(String[] args)
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