Uses of Class
com.compomics.util.protein.AASequenceImpl
Package | Description |
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com.compomics.util.gui.spectrum |
Spectrum and Chromatogram visualization GUI classes.
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com.compomics.util.nucleotide |
Useful objects for modeling and handling nucleotides.
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com.compomics.util.protein |
Classes concerning useful Objects and their operations for modeling and handling proteins.
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Uses of AASequenceImpl in com.compomics.util.gui.spectrum
Methods in com.compomics.util.gui.spectrum that return types with arguments of type AASequenceImpl Modifier and Type Method Description ArrayList<AASequenceImpl>
IsotopicDistributionPanel. getPeptideSequences()
Get the set of peptide sequences. -
Uses of AASequenceImpl in com.compomics.util.nucleotide
Methods in com.compomics.util.nucleotide that return AASequenceImpl Modifier and Type Method Description AASequenceImpl[]
NucleotideSequenceImpl. translate()
This method translates the specified nucleotidesequence into the six reading frames. -
Uses of AASequenceImpl in com.compomics.util.protein
Methods in com.compomics.util.protein that return AASequenceImpl Modifier and Type Method Description 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-YS<P>FVATER-COOH' or 'Ace-MATHM<Mox>PIR-COOH').Methods in com.compomics.util.protein with parameters of type AASequenceImpl Modifier and Type Method Description void
Protein. setSequence(AASequenceImpl aSequence)
Simple setter for the sequence.Constructors in com.compomics.util.protein with parameters of type AASequenceImpl Constructor Description Protein(Header aHeader, AASequenceImpl aSequence)
This constructor allows the passing of a Header, as well as an AASequenceImpl for this Protein.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.Protein(AASequenceImpl aSequence)
This constructor requires an AASequenceImpl as argument.