Package | Description |
---|---|
com.compomics.util.experiment |
This package contains MSExperiment main class and all sub-classes useful for the modeling of an experiment.
|
com.compomics.util.experiment.biology |
This package contains experiement classes related to biological entities.
|
com.compomics.util.experiment.biology.aminoacids | |
com.compomics.util.experiment.biology.atoms | |
com.compomics.util.experiment.biology.ions |
This package contains experiment classes related to ions.
|
com.compomics.util.experiment.identification |
This package contains experiment classes related to identifications.
|
com.compomics.util.experiment.identification.matches |
This package contains experiment classes releated to matches.
|
com.compomics.util.experiment.identification.ptm | |
com.compomics.util.experiment.identification.scoring | |
com.compomics.util.experiment.quantification.reporterion |
This package contains experiment classes related to reporter ions.
|
com.compomics.util.gui |
This package contains basic GUI classes.
|
com.compomics.util.gui.ptm | |
com.compomics.util.gui.spectrum |
This package contains GUI classes related to Spectrum and Chromatogram visualization.
|
com.compomics.util.preferences | |
com.compomics.util.protein |
The classes in this package concern useful Objects and their
operations for modelling and handling proteins.
|
Class and Description |
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Sample
This class models a proteomic sample.
|
Class and Description |
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AminoAcid
Class representing amino acids.
|
AminoAcidPattern
An amino acid pattern is a sequence of amino-acids.
|
Atom
This interface contains information about atoms
|
Enzyme
This class models an enzyme.
|
EnzymeFactory
This factory will provide the implemented enzymes.
|
GlyconFactory
This factory will provide theoretic glycons.
|
Ion
This class models an ion.
|
Ion.IonType
An enumerator of the supported ion types.
|
IonFactory
This factory generates the expected ions from a peptide.
|
NeutralLoss
This class represents a neutral loss.
|
Peptide
This class models a peptide.
|
Protein
This class models a protein.
|
PTM
This class models a post-translational modification.
|
PTMFactory
This factory will load PTM from an XML file and provide them on demand as
standard class.
|
Sample
This class models a proteomic sample.
|
Class and Description |
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AminoAcid
Class representing amino acids.
|
Class and Description |
---|
Atom
This interface contains information about atoms
|
Class and Description |
---|
Ion
This class models an ion.
|
NeutralLoss
This class represents a neutral loss.
|
Peptide
This class models a peptide.
|
Class and Description |
---|
Enzyme
This class models an enzyme.
|
Ion
This class models an ion.
|
Ion.IonType
An enumerator of the supported ion types.
|
NeutralLoss
This class represents a neutral loss.
|
Peptide
This class models a peptide.
|
Protein
This class models a protein.
|
Class and Description |
---|
Ion
This class models an ion.
|
Peptide
This class models a peptide.
|
Class and Description |
---|
Ion.IonType
An enumerator of the supported ion types.
|
Peptide
This class models a peptide.
|
PTM
This class models a post-translational modification.
|
Class and Description |
---|
Ion.IonType
An enumerator of the supported ion types.
|
Peptide
This class models a peptide.
|
Class and Description |
---|
Sample
This class models a proteomic sample.
|
Class and Description |
---|
AminoAcidPattern
An amino acid pattern is a sequence of amino-acids.
|
Class and Description |
---|
PTM
This class models a post-translational modification.
|
Class and Description |
---|
Ion
This class models an ion.
|
Ion.IonType
An enumerator of the supported ion types.
|
NeutralLoss
This class represents a neutral loss.
|
Peptide
This class models a peptide.
|
Class and Description |
---|
Ion.IonType
An enumerator of the supported ion types.
|
NeutralLoss
This class represents a neutral loss.
|
Peptide
This class models a peptide.
|
PTM
This class models a post-translational modification.
|
Class and Description |
---|
Enzyme
This class models an enzyme.
|
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