Package com.compomics.util.io.export.features.peptideshaker

Enum PsIdentificationAlgorithmMatchesFeature

java.lang.Object

java.lang.Enum<PsIdentificationAlgorithmMatchesFeature>

com.compomics.util.io.export.features.peptideshaker.PsIdentificationAlgorithmMatchesFeature

All Implemented Interfaces:

ExportFeature, Serializable, Comparable<PsIdentificationAlgorithmMatchesFeature>, java.lang.constant.Constable

public enum PsIdentificationAlgorithmMatchesFeature
extends Enum<PsIdentificationAlgorithmMatchesFeature>
implements ExportFeature

This class lists the Algorithm identification features.

Author:

Marc Vaudel, Harald Barsnes

Nested Class Summary

Nested classes/interfaces inherited from class java.lang.Enum

Enum.EnumDesc<E extends Enum<E>>

Enum Constant Summary

Enum Constants

Enum Constant	Description
aaAfter
aaBefore
accessions
algorithm_confidence
algorithm_delta_confidence
algorithm_raw_score
algorithm_score
amino_acids_annotated
decoy
delta_confidence
fixed_ptms
fragment_mz_accuracy_score
hidden
identification_charge
intensity_coverage
intensity_score
isotope
longest_amino_acid_sequence_annotated
longest_amino_acid_sequence_annotated_single_serie
max_intensity
missed_cleavages
modified_sequence
mz
mz_error_da
mz_error_ppm
position
precursor_intensity
protein_description
rank
rt
sequence
sequence_coverage
spectrum_array_list
spectrum_charge
spectrum_file
spectrum_scan_number
spectrum_title
starred
theoretical_mass
total_spectrum_intensity
validated
variable_ptms

Field Summary

Fields

Modifier and Type	Field	Description
String	description	The description of the feature.
String	title	The title of the feature which will be used for column heading.
static final String	type	The type of export feature.

Fields inherited from interface com.compomics.util.io.export.ExportFeature

serialVersionUID

Method Summary

Modifier and Type	Method	Description
String	getDescription()	Returns the description of the feature.
ArrayList<ExportFeature>	getExportFeatures(boolean includeSubFeatures)	Returns a list of all implemented export features.
String	getFeatureFamily()	Returns the family type of this export feature.
String	getTitle()	Returns the column title of the feature.
boolean	isAdvanced()	Indicates whether a feature is for advanced user only.
static PsIdentificationAlgorithmMatchesFeature	valueOf(String name)	Returns the enum constant of this type with the specified name.
static PsIdentificationAlgorithmMatchesFeature[]	values()	Returns an array containing the constants of this enum type, in the order they are declared.

Methods inherited from class java.lang.Enum

clone, compareTo, describeConstable, equals, finalize, getDeclaringClass, hashCode, name, ordinal, toString, valueOf

Methods inherited from class java.lang.Object

getClass, notify, notifyAll, wait, wait, wait

Enum Constant Details

rank

@SerializedName("PsIdentificationAlgorithmMatchesFeature.rank")
public static final PsIdentificationAlgorithmMatchesFeature rank

accessions

@SerializedName("PsIdentificationAlgorithmMatchesFeature.accessions")
public static final PsIdentificationAlgorithmMatchesFeature accessions

protein_description

@SerializedName("PsIdentificationAlgorithmMatchesFeature.protein_description")
public static final PsIdentificationAlgorithmMatchesFeature protein_description

sequence

@SerializedName("PsIdentificationAlgorithmMatchesFeature.sequence")
public static final PsIdentificationAlgorithmMatchesFeature sequence

aaBefore

@SerializedName("PsIdentificationAlgorithmMatchesFeature.aaBefore")
public static final PsIdentificationAlgorithmMatchesFeature aaBefore

aaAfter

@SerializedName("PsIdentificationAlgorithmMatchesFeature.aaAfter")
public static final PsIdentificationAlgorithmMatchesFeature aaAfter

position

@SerializedName("PsIdentificationAlgorithmMatchesFeature.position")
public static final PsIdentificationAlgorithmMatchesFeature position

missed_cleavages

@SerializedName("PsIdentificationAlgorithmMatchesFeature.missed_cleavages")
public static final PsIdentificationAlgorithmMatchesFeature missed_cleavages

modified_sequence

@SerializedName("PsIdentificationAlgorithmMatchesFeature.modified_sequence")
public static final PsIdentificationAlgorithmMatchesFeature modified_sequence

variable_ptms

@SerializedName("PsIdentificationAlgorithmMatchesFeature.variable_ptms")
public static final PsIdentificationAlgorithmMatchesFeature variable_ptms

fixed_ptms

@SerializedName("PsIdentificationAlgorithmMatchesFeature.fixed_ptms")
public static final PsIdentificationAlgorithmMatchesFeature fixed_ptms

spectrum_file

@SerializedName("PsIdentificationAlgorithmMatchesFeature.spectrum_file")
public static final PsIdentificationAlgorithmMatchesFeature spectrum_file

spectrum_title

@SerializedName("PsIdentificationAlgorithmMatchesFeature.spectrum_title")
public static final PsIdentificationAlgorithmMatchesFeature spectrum_title

spectrum_scan_number

@SerializedName("PsIdentificationAlgorithmMatchesFeature.spectrum_scan_number")
public static final PsIdentificationAlgorithmMatchesFeature spectrum_scan_number

spectrum_array_list

@SerializedName("PsIdentificationAlgorithmMatchesFeature.spectrum_array_list")
public static final PsIdentificationAlgorithmMatchesFeature spectrum_array_list

rt

@SerializedName("PsIdentificationAlgorithmMatchesFeature.rt")
public static final PsIdentificationAlgorithmMatchesFeature rt

mz

@SerializedName("PsIdentificationAlgorithmMatchesFeature.mz")
public static final PsIdentificationAlgorithmMatchesFeature mz

spectrum_charge

@SerializedName("PsIdentificationAlgorithmMatchesFeature.spectrum_charge")
public static final PsIdentificationAlgorithmMatchesFeature spectrum_charge

precursor_intensity

@SerializedName("PsIdentificationAlgorithmMatchesFeature.precursor_intensity")
public static final PsIdentificationAlgorithmMatchesFeature precursor_intensity

total_spectrum_intensity

@SerializedName("PsIdentificationAlgorithmMatchesFeature.total_spectrum_intensity.")
public static final PsIdentificationAlgorithmMatchesFeature total_spectrum_intensity

intensity_coverage

@SerializedName("PsIdentificationAlgorithmMatchesFeature.intensity_coverage")
public static final PsIdentificationAlgorithmMatchesFeature intensity_coverage

max_intensity

@SerializedName("PsIdentificationAlgorithmMatchesFeature.max_intensity")
public static final PsIdentificationAlgorithmMatchesFeature max_intensity

identification_charge

@SerializedName("PsIdentificationAlgorithmMatchesFeature.identification_charge")
public static final PsIdentificationAlgorithmMatchesFeature identification_charge

theoretical_mass

@SerializedName("PsIdentificationAlgorithmMatchesFeature.theoretical_mass")
public static final PsIdentificationAlgorithmMatchesFeature theoretical_mass

isotope

@SerializedName("PsIdentificationAlgorithmMatchesFeature.isotope")
public static final PsIdentificationAlgorithmMatchesFeature isotope

mz_error_ppm

@SerializedName("PsIdentificationAlgorithmMatchesFeature.mz_error_ppm")
public static final PsIdentificationAlgorithmMatchesFeature mz_error_ppm

mz_error_da

@SerializedName("PsIdentificationAlgorithmMatchesFeature.mz_error_da")
public static final PsIdentificationAlgorithmMatchesFeature mz_error_da

algorithm_score

@SerializedName("PsIdentificationAlgorithmMatchesFeature.algorithm_score")
public static final PsIdentificationAlgorithmMatchesFeature algorithm_score

algorithm_raw_score

@SerializedName("PsIdentificationAlgorithmMatchesFeature.algorithm_raw_score")
public static final PsIdentificationAlgorithmMatchesFeature algorithm_raw_score

algorithm_confidence

@SerializedName("PsIdentificationAlgorithmMatchesFeature.algorithm_confidence")
public static final PsIdentificationAlgorithmMatchesFeature algorithm_confidence

algorithm_delta_confidence

@SerializedName("PsIdentificationAlgorithmMatchesFeature.algorithm_delta_confidence")
public static final PsIdentificationAlgorithmMatchesFeature algorithm_delta_confidence

delta_confidence

@SerializedName("PsIdentificationAlgorithmMatchesFeature.delta_confidence")
public static final PsIdentificationAlgorithmMatchesFeature delta_confidence

fragment_mz_accuracy_score

@SerializedName("PsIdentificationAlgorithmMatchesFeature.fragment_mz_accuracy_score")
public static final PsIdentificationAlgorithmMatchesFeature fragment_mz_accuracy_score

intensity_score

@SerializedName("PsIdentificationAlgorithmMatchesFeature.intensity_score")
public static final PsIdentificationAlgorithmMatchesFeature intensity_score

sequence_coverage

@SerializedName("PsIdentificationAlgorithmMatchesFeature.sequence_coverage")
public static final PsIdentificationAlgorithmMatchesFeature sequence_coverage

longest_amino_acid_sequence_annotated

@SerializedName("PsIdentificationAlgorithmMatchesFeature.longest_amino_acid_sequence_annotated")
public static final PsIdentificationAlgorithmMatchesFeature longest_amino_acid_sequence_annotated

longest_amino_acid_sequence_annotated_single_serie

@SerializedName("PsIdentificationAlgorithmMatchesFeature.longest_amino_acid_sequence_annotated_single_serie")
public static final PsIdentificationAlgorithmMatchesFeature longest_amino_acid_sequence_annotated_single_serie

amino_acids_annotated

@SerializedName("PsIdentificationAlgorithmMatchesFeature.amino_acids_annotated")
public static final PsIdentificationAlgorithmMatchesFeature amino_acids_annotated

decoy

@SerializedName("PsIdentificationAlgorithmMatchesFeature.decoy")
public static final PsIdentificationAlgorithmMatchesFeature decoy

validated

@SerializedName("PsIdentificationAlgorithmMatchesFeature.validated")
public static final PsIdentificationAlgorithmMatchesFeature validated

starred

@SerializedName("PsIdentificationAlgorithmMatchesFeature.starred")
public static final PsIdentificationAlgorithmMatchesFeature starred

hidden

@SerializedName("PsIdentificationAlgorithmMatchesFeature.hidden")
public static final PsIdentificationAlgorithmMatchesFeature hidden

Field Details

title

public String title

The title of the feature which will be used for column heading.

description

public String description

The description of the feature.

type

public static final String type

The type of export feature.

See Also:

• Constant Field Values

Method Details

values

public static PsIdentificationAlgorithmMatchesFeature[] values()

Returns an array containing the constants of this enum type, in the order they are declared.

Returns:

an array containing the constants of this enum type, in the order they are declared

valueOf

public static PsIdentificationAlgorithmMatchesFeature valueOf(String name)

Returns the enum constant of this type with the specified name. The string must match exactly an identifier used to declare an enum constant in this type. (Extraneous whitespace characters are not permitted.)

Parameters:

name - the name of the enum constant to be returned.

Returns:

the enum constant with the specified name

Throws:

IllegalArgumentException - if this enum type has no constant with the specified name

NullPointerException - if the argument is null

getExportFeatures

public ArrayList<ExportFeature> getExportFeatures(boolean includeSubFeatures)

Description copied from interface: ExportFeature

Returns a list of all implemented export features.

Specified by:

getExportFeatures in interface ExportFeature

Parameters:

includeSubFeatures - boolean indicating whether sub features should be included

Returns:

a list of all implemented export features

getTitle

public String getTitle()

Description copied from interface: ExportFeature

Returns the column title of the feature.

Specified by:

getTitle in interface ExportFeature

Returns:

the column title of the feature

getDescription

public String getDescription()

Description copied from interface: ExportFeature

Returns the description of the feature.

Specified by:

getDescription in interface ExportFeature

Returns:

the description of the feature

getFeatureFamily

public String getFeatureFamily()

Description copied from interface: ExportFeature

Returns the family type of this export feature.

Specified by:

getFeatureFamily in interface ExportFeature

Returns:

the family type of this export feature

isAdvanced

public boolean isAdvanced()

Description copied from interface: ExportFeature

Indicates whether a feature is for advanced user only.

Specified by:

isAdvanced in interface ExportFeature

Returns:

a boolean indicating whether a feature is for advanced user only