A C F G I L M O P Q R S

A

AboutFrame - Class in org.expasy.bprg

A simple Frame aimed at displaying varous informations about the software.

AboutFrame(String) - Constructor for class org.expasy.bprg.AboutFrame

Constructor of the Frame.

addConstraints(GridBagConstraints, int, int, int, int, double, double, int, int, int, int) - Static method in class org.expasy.minitools.util.FileUtils

Add contraints to the display of an element in a panel using GridBagLayout.

ALDENTE_PROJECT_EXTENSION - Static variable in class org.expasy.minitools.util.FileUtils

Extension for aldente project files (*.prj)

C

collectInfos(PhenyxSILACPeptide, SilacQuantiParam) - Method in class org.expasy.bprg.PeptideQuantiInfos

F

FileUtils - Class in org.expasy.minitools.util

Title: FileUtils
Description:
Copyright: Copyright (c) 2003
Company: SIB
Date: 24 avr. 2003
Time: 13:53:32

findFileAsStream(String) - Static method in class org.expasy.minitools.util.FileUtils

Similar to the findImage method, but dedicated to files.

findImage(String) - Static method in class org.expasy.minitools.util.FileUtils

Finds an image using different methods to retrieve its location: first java.net.URL url = UIManager.class.getResource("../..

findImagePath(String) - Static method in class org.expasy.minitools.util.FileUtils

Similar to the findImage method, but dedicated to files.

G

getAACount(char[]) - Method in class org.expasy.bprg.PhenyxSILACPeptide

getAACounts(char[]) - Method in class org.expasy.bprg.PhenyxSILACPeptide

getAALabels() - Method in class org.expasy.bprg.SilacQuantiParam

getAAPresent(char[]) - Method in class org.expasy.bprg.PhenyxSILACPeptide

getC12Areas() - Method in class org.expasy.bprg.PeptideQuantiInfos

getC13Areas() - Method in class org.expasy.bprg.PeptideQuantiInfos

getDescription() - Method in class org.expasy.bprg.PhenyxSILACPeptide

getExtension(File) - Static method in class org.expasy.minitools.util.FileUtils

Get the extension of a file.

getForm() - Method in class org.expasy.bprg.PeptideQuantiInfos

getHeavyMass() - Method in class org.expasy.bprg.PeptideQuantiInfos

getIntermAreas() - Method in class org.expasy.bprg.PeptideQuantiInfos

getIntermMasses() - Method in class org.expasy.bprg.PeptideQuantiInfos

getLabeledAANumber() - Method in class org.expasy.bprg.PeptideQuantiInfos

getLightMass() - Method in class org.expasy.bprg.PeptideQuantiInfos

getMasses() - Method in class org.expasy.bprg.PeptideQuantiInfos

getModifsExcept(String) - Method in class org.expasy.bprg.PhenyxSILACPeptide

getModifsExcept(String[]) - Method in class org.expasy.bprg.PhenyxSILACPeptide

getPeptideMass() - Method in class org.expasy.bprg.PhenyxSILACPeptide

getPeptideString() - Method in class org.expasy.bprg.PeptideQuantiInfos

getPeptideString() - Method in class org.expasy.bprg.PhenyxSILACPeptide

getProteinName() - Method in class org.expasy.bprg.PeptideQuantiInfos

getProteinName() - Method in class org.expasy.bprg.PhenyxSILACPeptide

getSpectrumId() - Method in class org.expasy.bprg.PhenyxSILACPeptide

getSpectrumLabel() - Method in class org.expasy.bprg.PhenyxSILACPeptide

getSumHeavyForms() - Method in class org.expasy.bprg.PeptideQuantiInfos

getSumLightForms() - Method in class org.expasy.bprg.PeptideQuantiInfos

Return only C12 value (was also adding c12-1Da and c12-2Da)

getTagLabels() - Method in class org.expasy.bprg.SilacQuantiParam

I

isFileFound() - Method in class org.expasy.bprg.PeptideQuantiInfos

isInJar() - Static method in class org.expasy.minitools.util.FileUtils

Test is the executed application has been zipped in a jar.

isLabeledWith(String) - Method in class org.expasy.bprg.PhenyxSILACPeptide

isLabeledWith(String[]) - Method in class org.expasy.bprg.PhenyxSILACPeptide

L

layout - package layout

log4j_properties_filepath - Static variable in class org.expasy.bprg.Resources

M

main(String[]) - Static method in class org.expasy.bprg.AboutFrame

Test this frame independently.

main(String[]) - Static method in class org.expasy.bprg.MainFrame

Starting main function.

main(String[]) - Static method in class org.expasy.bprg.SilacQuanti

MainFrame - Class in org.expasy.bprg

MainFrame() - Constructor for class org.expasy.bprg.MainFrame

makeCompactGrid(Container, int, int, int, int, int, int) - Static method in class layout.SpringUtilities

Aligns the first rows * cols components of parent in a grid.

makeGrid(Container, int, int, int, int, int, int) - Static method in class layout.SpringUtilities

Aligns the first rows * cols components of parent in a grid.

O

org.expasy.bprg - package org.expasy.bprg

org.expasy.minitools.util - package org.expasy.minitools.util

P

PeptideQuantiInfos - Class in org.expasy.bprg

PeptideQuantiInfos() - Constructor for class org.expasy.bprg.PeptideQuantiInfos

PhenyxSILACPeptide - Class in org.expasy.bprg

PhenyxSILACPeptide(Cell[]) - Constructor for class org.expasy.bprg.PhenyxSILACPeptide

printSizes(Component) - Static method in class layout.SpringUtilities

A debugging utility that prints to stdout the component's minimum, preferred, and maximum sizes.

Q

quantifyAndWrite(File, SilacQuantiParam) - Method in class org.expasy.bprg.SilacQuanti

R

Resources - Class in org.expasy.bprg

Abstract class containing testing files paths.

runSilacQuanti() - Method in class org.expasy.bprg.MainFrame

S

SilacQuanti - Class in org.expasy.bprg

ne pas rechercher les peak ŕ -6Da, -12Da, ect ... si le pic 13C n'a pas été trouvé

SilacQuanti() - Constructor for class org.expasy.bprg.SilacQuanti

SilacQuantiParam - Class in org.expasy.bprg

SilacQuantiParam() - Constructor for class org.expasy.bprg.SilacQuantiParam

SpringUtilities - Class in layout

A 1.4 file that provides utility methods for creating form- or grid-style layouts with SpringLayout.

SpringUtilities() - Constructor for class layout.SpringUtilities

A C F G I L M O P Q R S