Package | Description |
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com.compomics.util.experiment |
This package contains MSExperiment main class and all sub-classes useful for the modeling of an experiment.
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com.compomics.util.experiment.biology |
This package contains experiement classes related to biological entities.
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com.compomics.util.experiment.quantification.reporterion |
This package contains experiment classes related to reporter ions.
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Modifier and Type | Method and Description |
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Sample |
MsExperiment.getSample(int id)
Returns a single sample accessed by its index
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Modifier and Type | Method and Description |
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java.util.HashMap<java.lang.Integer,Sample> |
MsExperiment.getSamples()
Returns the implemented samples
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Modifier and Type | Method and Description |
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void |
MsExperiment.addAnalysisSet(Sample sample,
SampleAnalysisSet analysisSet)
Method to link an analysis set to an experiment
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SampleAnalysisSet |
MsExperiment.getAnalysisSet(Sample sample)
Returns the analysis set corresponding to a sample
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void |
MsExperiment.setSample(int index,
Sample sample)
Set a new sample
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Constructor and Description |
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SampleAnalysisSet(Sample referenceSample,
java.util.ArrayList<ProteomicAnalysis> replicates)
Contructor for a set of analysis of a sample
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SampleAnalysisSet(Sample referenceSample,
ProteomicAnalysis replicate)
Contructor for an analysis of a sample without replicates
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Constructor and Description |
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MsExperiment(java.lang.String reference,
java.util.HashMap<java.lang.Integer,Sample> samples)
Constructor for an experiment
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Modifier and Type | Method and Description |
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boolean |
Sample.isSameAs(Sample otherSample)
Comparator for samples.
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Modifier and Type | Method and Description |
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Sample |
ReporterIonQuantification.getSample(int reporterIndex)
This method returns the sample associated to the given ion.
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Modifier and Type | Method and Description |
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void |
ReporterIonQuantification.assignSample(int reporterIndex,
Sample sample)
Assign a sample to an ion referenced by its static index.
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java.lang.Integer |
ReporterIonQuantification.getReporterIndex(Sample aSample)
This method returns the ion associated to the given sample.
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