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