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java.lang.Objectuk.ac.ebi.jmzidml.model.MzIdentMLObject
uk.ac.ebi.jmzidml.model.mzidml.Identifiable
uk.ac.ebi.jmzidml.model.mzidml.Peptide
public class Peptide
One (poly)peptide (a sequence with modifications). The combination of Peptide sequence and modifications must be unique in the file.
Java class for PeptideType complex type.
The following schema fragment specifies the expected content contained within this class.
<complexType name="PeptideType"> <complexContent> <extension base="{http://psidev.info/psi/pi/mzIdentML/1.1}IdentifiableType"> <sequence> <element name="PeptideSequence" type="{http://psidev.info/psi/pi/mzIdentML/1.1}sequence"/> <element name="Modification" type="{http://psidev.info/psi/pi/mzIdentML/1.1}ModificationType" maxOccurs="unbounded" minOccurs="0"/> <element name="SubstitutionModification" type="{http://psidev.info/psi/pi/mzIdentML/1.1}SubstitutionModificationType" maxOccurs="unbounded" minOccurs="0"/> <group ref="{http://psidev.info/psi/pi/mzIdentML/1.1}ParamGroup" maxOccurs="unbounded" minOccurs="0"/> </sequence> </extension> </complexContent> </complexType>
Field Summary | |
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protected List<Modification> |
modification
|
protected List<AbstractParam> |
paramGroup
|
protected String |
peptideSequence
|
protected List<SubstitutionModification> |
substitutionModification
|
Fields inherited from class uk.ac.ebi.jmzidml.model.mzidml.Identifiable |
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id, name |
Constructor Summary | |
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Peptide()
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Method Summary | |
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List<CvParam> |
getCvParam()
|
List<Modification> |
getModification()
Gets the value of the modification property. |
List<AbstractParam> |
getParamGroup()
Additional descriptors of this peptide sequence Gets the value of the paramGroup property. |
String |
getPeptideSequence()
Gets the value of the peptideSequence property. |
List<SubstitutionModification> |
getSubstitutionModification()
Gets the value of the substitutionModification property. |
List<UserParam> |
getUserParam()
|
void |
setPeptideSequence(String value)
Sets the value of the peptideSequence property. |
Methods inherited from class uk.ac.ebi.jmzidml.model.mzidml.Identifiable |
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getId, getName, setId, setName |
Methods inherited from class uk.ac.ebi.jmzidml.model.MzIdentMLObject |
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getHid |
Methods inherited from class java.lang.Object |
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clone, equals, finalize, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait |
Field Detail |
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protected String peptideSequence
protected List<Modification> modification
protected List<SubstitutionModification> substitutionModification
protected List<AbstractParam> paramGroup
Constructor Detail |
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public Peptide()
Method Detail |
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public String getPeptideSequence()
String
public void setPeptideSequence(String value)
value
- allowed object is
String
public List<Modification> getModification()
This accessor method returns a reference to the live list,
not a snapshot. Therefore any modification you make to the
returned list will be present inside the JAXB object.
This is why there is not a set
method for the modification property.
For example, to add a new item, do as follows:
getModification().add(newItem);
Objects of the following type(s) are allowed in the list
Modification
public List<SubstitutionModification> getSubstitutionModification()
This accessor method returns a reference to the live list,
not a snapshot. Therefore any modification you make to the
returned list will be present inside the JAXB object.
This is why there is not a set
method for the substitutionModification property.
For example, to add a new item, do as follows:
getSubstitutionModification().add(newItem);
Objects of the following type(s) are allowed in the list
SubstitutionModification
public List<AbstractParam> getParamGroup()
This accessor method returns a reference to the live list,
not a snapshot. Therefore any modification you make to the
returned list will be present inside the JAXB object.
This is why there is not a set
method for the paramGroup property.
For example, to add a new item, do as follows:
getParamGroup().add(newItem);
Objects of the following type(s) are allowed in the list
CvParam
UserParam
public List<CvParam> getCvParam()
getCvParam
in interface CvParamListCapable
getCvParam
in interface ParamGroupCapable
public List<UserParam> getUserParam()
getUserParam
in interface ParamGroupCapable
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