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Packages that use AASequenceImpl | |
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com.compomics.util.gui.spectrum | This package contains GUI classes related to Spectrum and Chromatogram visualization. |
com.compomics.util.nucleotide | The classes in this package concern useful Objects and their operations for modelling and handling nucleotides. |
com.compomics.util.protein | The classes in this package concern useful Objects and their operations for modelling and handling proteins. |
Uses of AASequenceImpl in com.compomics.util.gui.spectrum |
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Methods in com.compomics.util.gui.spectrum that return types with arguments of type AASequenceImpl | |
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ArrayList<AASequenceImpl> |
IsotopicDistributionPanel.getPeptideSequences()
Get the set of peptide sequences. |
Uses of AASequenceImpl in com.compomics.util.nucleotide |
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Methods in com.compomics.util.nucleotide that return AASequenceImpl | |
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AASequenceImpl[] |
NucleotideSequenceImpl.translate()
This method translates the specified nucleotidesequence into the six reading frames. |
Uses of AASequenceImpl in com.compomics.util.protein |
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Methods in com.compomics.util.protein that return AASequenceImpl | |
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AASequenceImpl |
AASequenceImpl.getCTermTruncatedSequence(int aTruncationSize)
This method will return an AASequenceImpl that represents a C-terminal truncation of the current sequence. |
AASequenceImpl |
AASequenceImpl.getNTermTruncatedSequence(int aTruncationSize)
This method will return an AASequenceImpl that represents an N-terminal truncation of the current sequence. |
AASequenceImpl |
Protein.getSequence()
This method reports on the sequence for the current protein. |
AASequenceImpl |
AASequenceImpl.getTruncatedSequence(int aStart,
int aEnd)
This method will return an AASequenceImpl that represents an internal truncation of the current sequence. |
static AASequenceImpl |
AASequenceImpl.parsePeptideFromAnnotatedSequence(String aAnnotatedSequence)
This method allows the construction of an AASequenceImpl object, complete with modifications from an annotated sequence String (eg., something like: 'NH2-YSFVATER-COOH' or 'Ace-MATHM |
Methods in com.compomics.util.protein with parameters of type AASequenceImpl | |
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void |
Protein.setSequence(AASequenceImpl aSequence)
Simple setter for the sequence. |
Constructors in com.compomics.util.protein with parameters of type AASequenceImpl | |
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Protein(Header aHeader,
AASequenceImpl aSequence)
This constructor allows the passing of a Header, as well as an AASequenceImpl for this Protein. |
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Protein(Header aHeader,
AASequenceImpl aSequence,
boolean aTruncated,
int aTruncationPosition)
This constructor allows the passing of a Header, as well as an AASequenceImpl for this Protein. |
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Protein(AASequenceImpl aSequence)
This constructor requires an AASequenceImpl as argument. |
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