Constant Field Values

Contents

• eu.isas.*

eu.isas.*

eu.isas.peptideshaker.PeptideShaker

Modifier and Type	Constant Field	Value
public static final String	PEPTIDESHAKER_CONFIGURATION_FILE	"PeptideShaker_configuration.txt"
public static final int	TIMEOUT_DAYS	365

eu.isas.peptideshaker.export.ProjectExport

Modifier and Type	Constant Field	Value
public static final String	DEFAULT_DATA_FOLDER	"data"
public static final String	DEFAULT_REPORTS_FOLDER	"reports"

eu.isas.peptideshaker.export.exportfeatures.PsAnnotationFeature

Modifier and Type	Constant Field	Value
public static final String	type	"Annotation Settings"

eu.isas.peptideshaker.export.exportfeatures.PsFragmentFeature

Modifier and Type	Constant Field	Value
public static final String	type	"Fragment Ions Summary"

eu.isas.peptideshaker.export.exportfeatures.PsIdentificationAlgorithmMatchesFeature

Modifier and Type	Constant Field	Value
public static final String	type	"Identification Algorithm Results"

eu.isas.peptideshaker.export.exportfeatures.PsInputFilterFeature

Modifier and Type	Constant Field	Value
public static final String	type	"Input Filters"

eu.isas.peptideshaker.export.exportfeatures.PsPeptideFeature

Modifier and Type	Constant Field	Value
public static final String	type	"Peptide Identification Summary"

eu.isas.peptideshaker.export.exportfeatures.PsProjectFeature

Modifier and Type	Constant Field	Value
public static final String	type	"Project Details"

eu.isas.peptideshaker.export.exportfeatures.PsProteinFeature

Modifier and Type	Constant Field	Value
public static final String	type	"Protein Identification Summary"

eu.isas.peptideshaker.export.exportfeatures.PsPsmFeature

Modifier and Type	Constant Field	Value
public static final String	type	"Peptide Spectrum Matching Summary"

eu.isas.peptideshaker.export.exportfeatures.PsPtmScoringFeature

Modifier and Type	Constant Field	Value
public static final String	type	"PTM Scoring Settings"

eu.isas.peptideshaker.export.exportfeatures.PsSearchFeature

Modifier and Type	Constant Field	Value
public static final String	type	"Database Search Parameters"

eu.isas.peptideshaker.export.exportfeatures.PsSpectrumCountingFeature

Modifier and Type	Constant Field	Value
public static final String	type	"Spectrum Counting Parameters"

eu.isas.peptideshaker.export.exportfeatures.PsValidationFeature

Modifier and Type	Constant Field	Value
public static final String	type	"Validation Summary"

eu.isas.peptideshaker.fileimport.PsmImportRunnable

Modifier and Type	Constant Field	Value
public static final int	BATCH_SIZE	100000

eu.isas.peptideshaker.followup.ProgenesisExport

Modifier and Type	Constant Field	Value
public static final char	SEPARATOR	9

eu.isas.peptideshaker.followup.RecalibrationExporter

Modifier and Type	Constant Field	Value
public static final String	SUFFIX	"_recalibrated"

eu.isas.peptideshaker.gui.NewDialog

Modifier and Type	Constant Field	Value
public static final String	SEARCHGUI_INPUT	"searchGUI_input.txt"

eu.isas.peptideshaker.gui.PeptideShakerGUI

Modifier and Type	Constant Field	Value
public static final int	ANNOTATION_TAB_INDEX	5
public static final int	GO_ANALYSIS_TAB_INDEX	6
public static final int	MODIFICATIONS_TAB_INDEX	3
public static final int	OVER_VIEW_TAB_INDEX	0
public static final int	PROTEIN_FRACTIONS_TAB_INDEX	2
public static final int	QC_PLOTS_TAB_INDEX	8
public static final int	SPECTRUM_ID_TAB_INDEX	1
public static final int	STRUCTURES_TAB_INDEX	4
public static final int	VALIDATION_TAB_INDEX	7

eu.isas.peptideshaker.gui.tabpanels.ModificationsPanel

Modifier and Type	Constant Field	Value
public static final String	NO_MODIFICATION	"No modifications"

eu.isas.peptideshaker.gui.tabpanels.SpectrumIdentificationPanel

Modifier and Type	Constant Field	Value
public static final int	AGREEMENT	3
public static final int	AGREEMENT_WITH_MODS	4
public static final int	CONFLICT	1
public static final int	NO_ID	0
public static final int	PARTIALLY_MISSING	2

eu.isas.peptideshaker.preferences.DisplayParameters

Modifier and Type	Constant Field	Value
public static final String	LOADING_MESSAGE	"Loading..."

eu.isas.peptideshaker.recalibration.RunMzDeviation

Modifier and Type	Constant Field	Value
public static final int	mzBinSize	101
public static final int	rtBinSize	202

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

Modifier and Type	Constant Field	Value
public static final String	GARBAGE	"OTHER"

eu.isas.peptideshaker.stirred.Stirred

Modifier and Type	Constant Field	Value
public final String	SOFTWARE_NAME	"PeptideShaker"
public final String	SOFTWARE_URL	"https://compomics.github.io/projects/peptide-shaker.html"

eu.isas.peptideshaker.utils.PsZipUtils

Modifier and Type	Constant Field	Value
public static final String	TEMP_FOLDER_NAME	"PeptideShaker_temp"
public static final String	UNZIP_SUB_FOLDER	".PeptideShaker_unzip_temp"