Package | Description |
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uk.ac.ebi.pride.utilities.iongen.impl | |
uk.ac.ebi.pride.utilities.mol |
Modifier and Type | Method and Description |
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AminoAcid |
ImmoniumIon.getAcid() |
Modifier and Type | Method and Description |
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static AminoAcid |
MoleculeUtilities.getAminoacid(char aa)
Converts a chart to an AminoAcid if it matches with one of them
|
static AminoAcid |
AminoAcid.getAminoAcid(char oneLetterCode) |
AminoAcid |
AminoAcidSequence.getAminoAcid(int index)
Returns the amino acid with specified index
|
static AminoAcid |
AminoAcid.valueOf(String name)
Returns the enum constant of this type with the specified name.
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static AminoAcid[] |
AminoAcid.values()
Returns an array containing the constants of this enum type, in
the order they are declared.
|
Modifier and Type | Method and Description |
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List<AminoAcid> |
Peptide.getAminoAcids() |
List<AminoAcid> |
AminoAcidSequence.getAminoAcids()
Returns a new list of amino acids
|
static List<AminoAcid> |
MoleculeUtilities.searchForAminoAcid(double massRangeStart,
double massRangeEnd,
boolean isMonoMass)
Search within a mass window (inclusive).
|
Modifier and Type | Method and Description |
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void |
AminoAcidSequence.addAminoAcid(AminoAcid residue)
Add a new amino acid to the end of the Peptide.
|
Modifier and Type | Method and Description |
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void |
AminoAcidSequence.addAminoAcids(Collection<AminoAcid> residues)
Add a collection of amino acids to the end of the Peptide.
|
Constructor and Description |
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AminoAcidSequence(AminoAcid... residues)
Constructor to ake a Peptide object with specified amino acids.
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Constructor and Description |
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Peptide(List<AminoAcid> acidList)
Create a peptide without PTM.
|
Peptide(List<AminoAcid> acidList,
Group n_terminal,
Group c_terminal)
Create a peptide without PTM.
|
Peptide(List<AminoAcid> acidList,
Group n_terminal,
Group c_terminal,
Map<Integer,PTModification> ptm)
Create a peptide with PTM.
|
Peptide(List<AminoAcid> acidList,
Map<Integer,PTModification> ptm)
Create a peptide with PTM.
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Copyright © 2015 European Bioinformatics Institute. All Rights Reserved.