A B C D E F G H I J K L M N O P Q R S T U V W X Y

M

MaFrame - Class in aloneinterfaces

Main windows and catch Events
Graphical class

MaFrame() - Constructor for class aloneinterfaces.MaFrame

Default constructor of window.

mahyd - Static variable in class testsorigin.Alignedtmrna

mahyd - Static variable in class testssuite02.Alignedtmrna

main(String[]) - Static method in class alonecontroller.AloneServlet

The mostly classical «public static void main String[] args».

main(String[]) - Static method in class origincomment.TestAln

main(String[]) - Static method in class testssuite01.MoreTestsCT

mainSequence - Variable in class modele.Palindrome

Use when checking Conservation and relevance of palindrome.

margebas - Variable in class aloneinterfaces.MonImage

margedroite - Variable in class aloneinterfaces.MonImage

margegauche - Variable in class aloneinterfaces.MonImage

margehaut - Variable in class aloneinterfaces.MonImage

match(char, char) - Method in class origincomment.ADN1

"Methode qui teste si deux bases peuvent s'apparier"

match(char, char) - Method in class origincomment.ADN1test

"Method which test if two bases can pair

match(char, char) - Method in class origincomment.StefanErrors

[...]

matchBases(char, char) - Static method in class modele.Base

To know if two nucleotids (char) can go together.

matchBases(Base, Base) - Static method in class modele.Base

To know if two Base's can go together.

matchBasesGap(char, char) - Static method in class modele.Base

To know if two nucleotids (char) can go together (including gap's).

matchBasesGap(Base, Base) - Static method in class modele.Base

To know if two Base's can go together (including gap's).

matrice - Variable in class modele.Alignement

Alignment matrix.

matrice - Variable in class origincomment.Matrice_ALN

2D table (default is null).

Matrice_ALN - Class in origincomment

Alignment matrix...

Matrice_ALN(ADN1test, ADN1test, int, int, int, int, int, double) - Constructor for class origincomment.Matrice_ALN

max - Variable in class origincomment.Resultat

Maximum (deafult is -100 000).

maxHomology - Static variable in class modele.Algorithms

Deprecated. Maximum homology rate for selection in SSCA.

maxInt(int[]) - Static method in class modele.Alignement

To find a maximum int in a group of int (0 if group have no member).

maxPredictions - Variable in class controller.ProcessusNew

maxPredictions - Variable in class controller.ProcessusOrigin

meext - Static variable in class testsorigin.Alignedtmrna

meext - Static variable in class testssuite02.Alignedtmrna

meilleur() - Method in class origincomment.Matrice_ALN

To get the best ??

meilleur_combinaison_sequence(ADN1cible, ADN1cible, ADN1test, ADN1test[], int[], int, int, int, int, int, Resultat, boolean) - Static method in class origincomment.ADN1test

meilleur_score(int) - Static method in class origincomment.Matrice_ALN

meilleure_combinaison(Matrice_ALN[], int, int) - Static method in class origincomment.Matrice_ALN

Best combination ?

meilleuresSeqTest - Static variable in class origincomment.ADN1test

The best test sequences.

meilleurScore - Static variable in class origincomment.Matrice_ALN

Best score matrix.

menu - Variable in class aloneinterfaces.Interface

Selection Menu.

mettre_etoile(ADN1cible, int) - Method in class modele.OriginAlgorithmsStefan

Deprecated. converted and put into SequenceCible : SequenceCible.mettre_etoile(PalindromeCible[])

mettre_etoile(Palindrome[]) - Method in class modele.Sequence

PSEUDOKNOTS SEARCH
"This method to put stars (*) in found palindromes in aim to find pseudoknots"
CIBLE SEQUENCE

mettre_etoile(PalindromeCible[]) - Method in class modele.SequenceCible

Deprecated. PSEUDOKNOTS SEARCH
"This method to put stars (*) in found palindromes in aim to find pseudoknots"

mettre_etoile(int) - Method in class origincomment.ADN1cible

PSEUDOKNOTS SEARCH
"This method to put stars (*) in found palindromes in aim to find pseudoknots)"

minHomology - Static variable in class modele.Algorithms

Deprecated. Minimum homology rate for selection in SSCA.

modele - package modele

Model for objet representation and computing P-DCFold Algorithms.

MonBouton - Class in aloneinterfaces

Personnalized Button.

MonBouton(URL) - Constructor for class aloneinterfaces.MonBouton

Constructor with link to image.

MonBureau - Class in aloneinterfaces

Software virtual desktop.

MonBureau() - Constructor for class aloneinterfaces.MonBureau

MonImage - Class in aloneinterfaces

For images visualization.

MonImage(String) - Constructor for class aloneinterfaces.MonImage

Constructor with file name to read and to see.

MonImage(String, int, int) - Constructor for class aloneinterfaces.MonImage

Constructor with name, height and width of the image.

monlayout - Variable in class aloneinterfaces.Interface

Current layout.

MonLayout - Class in aloneinterfaces

Window organisation (layout) or panel.

MonLayout() - Constructor for class aloneinterfaces.MonLayout

MonMenu - Class in aloneinterfaces

Window Menu Bar.

MonMenu() - Constructor for class aloneinterfaces.MonMenu

Default constructor.

more - Variable in class controller.ListeBean

To get the many combinations selected after SSCA.

more_predictions - Variable in class modele.AlgorithmsStefan

Searching much structures or not

more_predictions - Variable in class modele.OriginAlgorithmsStefan

Searching much structures or not

more_predictions - Variable in class modele.OtherAlgorithmsStefan

Searching much structures or not

MoreTestsCT - Class in testssuite01

MoreTestsCT() - Constructor for class testssuite01.MoreTestsCT

moyenne - Variable in class origincomment.Resultat

Average.

moyenneVariabilite - Variable in class modele.SequenceListe

Average of variabilite of Sequence's in list.

Ms - Static variable in class modele.Algorithms

Deprecated. Maximal number of alternate structure in Palindrome Search.

muchpredictions - Variable in class controller.ProcessusNew

muchpredictions - Variable in class controller.ProcessusOrigin

mutation(int, Random, Profil) - Method in class origincomment.ADN1test

mutation3prime - Variable in class origincomment.Alignement

3' mutation

mutation5prime - Variable in class origincomment.Alignement

5' mutation

MUTATION_SIMPLE - Static variable in class origincomment.Alignement

MUTATION_SIMPLE (single mutation) is -2.

myavi - Static variable in class testsorigin.Alignedtmrna

myavi - Static variable in class testssuite02.Alignedtmrna

mybov - Static variable in class testsorigin.Alignedtmrna

mybov - Static variable in class testssuite02.Alignedtmrna

mycap - Static variable in class testsorigin.Alignedtmrna

mycap - Static variable in class testssuite02.Alignedtmrna

mygen - Static variable in class testsorigin.Alignedtmrna

mygen - Static variable in class testsorigin.Alignedtrna

mygen - Static variable in class testssuite02.Alignedtmrna

mygen - Static variable in class testssuite02.Alignedtrna

mylep - Static variable in class testsorigin.Alignedtmrna

mylep - Static variable in class testssuite02.Alignedtmrna

mypen - Static variable in class testsorigin.Alignedtmrna

mypen - Static variable in class testssuite02.Alignedtmrna

mypne - Static variable in class testsorigin.Alignedtrna

mypne - Static variable in class testssuite02.Alignedtrna

mytub - Static variable in class testsorigin.Alignedtmrna

mytub - Static variable in class testssuite02.Alignedtmrna