Package eu.isas.peptideshaker.scoring.maps.specific

Class ModificationSpecificMap

java.lang.Object

com.compomics.util.experiment.personalization.ExperimentObject

eu.isas.peptideshaker.scoring.maps.SpecificTargetDecoyMap

eu.isas.peptideshaker.scoring.maps.specific.ModificationSpecificMap

All Implemented Interfaces:

Serializable

public class ModificationSpecificMap
extends SpecificTargetDecoyMap

Modification specific target decoy map.

Author:

Marc Vaudel

See Also:

• Serialized Form

Field Summary

Fields

Modifier and Type	Field	Description
static final String	GARBAGE	The name of the garbage category.
static final int	GARBAGE_KEY	The key of the garbage category.

Fields inherited from class eu.isas.peptideshaker.scoring.maps.SpecificTargetDecoyMap

fileSpecificGrouping, fileSpecificMaps, groupedMaps, grouping

Fields inherited from class com.compomics.util.experiment.personalization.ExperimentObject

NO_KEY

Constructor Summary

Constructors

Constructor	Description
ModificationSpecificMap()

Method Summary

Modifier and Type	Method	Description
void	clean(double minimalFDR)	Handles sparse maps.

Methods inherited from class eu.isas.peptideshaker.scoring.maps.SpecificTargetDecoyMap

addPoint, estimateProbabilities, getCategoriesFromGroupedFiles, getChargeGroupingMap, getCorrectedCharge, getFilesAtCategory, getGroupedCategories, getMapsSize, getPossibleCategories, getProbability, getTargetDecoyMap, getTargetDecoyMaps, isFileGrouped

Methods inherited from class com.compomics.util.experiment.personalization.ExperimentObject

addUrParam, asLong, clearParametersMap, getId, getUrParam, getUrParams, removeUrParam, setId, setUrParams

Methods inherited from class java.lang.Object

clone, equals, finalize, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait

Field Details

GARBAGE

public static final String GARBAGE

The name of the garbage category.

See Also:

• Constant Field Values

GARBAGE_KEY

public static final int GARBAGE_KEY

The key of the garbage category.

Constructor Details

ModificationSpecificMap

public ModificationSpecificMap()

Method Details

clean

public void clean(double minimalFDR)

Description copied from class: SpecificTargetDecoyMap

Handles sparse maps.

Specified by:

clean in class SpecificTargetDecoyMap

Parameters:

minimalFDR - the minimal FDR which should be achievable