Class NovorParameters
java.lang.Object
com.compomics.util.experiment.personalization.ExperimentObject
com.compomics.util.parameters.identification.tool_specific.NovorParameters
- All Implemented Interfaces:
IdentificationAlgorithmParameter
,Serializable
public class NovorParameters extends ExperimentObject implements IdentificationAlgorithmParameter
Novor specific parameters.
- Author:
- Harald Barsnes
- See Also:
- Serialized Form
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Field Summary
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Constructor Summary
Constructors Constructor Description NovorParameters()
Constructor. -
Method Summary
Modifier and Type Method Description boolean
equals(IdentificationAlgorithmParameter identificationAlgorithmParameter)
Indicates whether another identificationAlgorithmParameter has the same parameters.Advocate
getAlgorithm()
Returns the identification algorithm.String
getFragmentationMethod()
Returns the fragmentation method.String
getMassAnalyzer()
Returns the mass analyzer.HashMap<String,String>
getNovorPtmMap()
Returns the Novor to utilities PTM map.String
getUtilitiesPtmName(String novorPtmShortName)
Returns the utilities PTM name corresponding to the given Novor PTM short name.void
setFragmentationMethod(String fragmentationMethod)
Set the fragmentation method.void
setMassAnalyzer(String massAnalyzer)
Set the mass analyzer.void
setNovorPtmMap(HashMap<String,String> novorPtmMap)
Set the Novor to utilities PTM map.String
toString(boolean html)
Returns the parameters as a string.Methods inherited from class com.compomics.util.experiment.personalization.ExperimentObject
addUrParam, asLong, clearParametersMap, getId, getUrParam, getUrParams, removeUrParam, setId, setUrParams
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Constructor Details
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NovorParameters
public NovorParameters()Constructor.
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Method Details
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getAlgorithm
Description copied from interface:IdentificationAlgorithmParameter
Returns the identification algorithm.- Specified by:
getAlgorithm
in interfaceIdentificationAlgorithmParameter
- Returns:
- the identification algorithm
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equals
Description copied from interface:IdentificationAlgorithmParameter
Indicates whether another identificationAlgorithmParameter has the same parameters.- Specified by:
equals
in interfaceIdentificationAlgorithmParameter
- Parameters:
identificationAlgorithmParameter
- the other identificationAlgorithmParameter- Returns:
- true if the algorithm and parameters are the same
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toString
Description copied from interface:IdentificationAlgorithmParameter
Returns the parameters as a string.- Specified by:
toString
in interfaceIdentificationAlgorithmParameter
- Parameters:
html
- use HTML formatting- Returns:
- the parameters as a string
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getFragmentationMethod
Returns the fragmentation method.- Returns:
- the fragmentation method
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setFragmentationMethod
Set the fragmentation method.- Parameters:
fragmentationMethod
- the fragmentation method to set
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getMassAnalyzer
Returns the mass analyzer.- Returns:
- the mass analyzer
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setMassAnalyzer
Set the mass analyzer.- Parameters:
massAnalyzer
- the mass analyzer to set
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getNovorPtmMap
Returns the Novor to utilities PTM map. Null if not set.- Returns:
- the Novor to utilities PTM map, null if not set
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setNovorPtmMap
Set the Novor to utilities PTM map.- Parameters:
novorPtmMap
- the novorPtmMap to set
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getUtilitiesPtmName
Returns the utilities PTM name corresponding to the given Novor PTM short name. Null if not found.- Parameters:
novorPtmShortName
- the Novor PTM short name- Returns:
- the utilities PTM name
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