com.compomics.util.gui.protein

Class ModificationProfile

java.lang.Object

com.compomics.util.gui.protein.ModificationProfile

public class ModificationProfile
extends java.lang.Object

A simple modification profile object.

Author:

Harald Barsnes

Field Summary

Fields

Modifier and Type	Field and Description
static int	SCORE_1_ROW_INDEX The score above the sequence row index.
static int	SCORE_2_ROW_INDEX The score under the sequence row index.

Constructor Summary

Constructors

Constructor and Description
ModificationProfile(java.lang.String ptmName, double[][] profile, java.awt.Color color) Modification profile constructor.

Method Summary

Methods

Modifier and Type	Method and Description
java.awt.Color	getColor() Returns the PTM color.
double[][]	getProfile() Returns the profile.
java.lang.String	getPtmName() Returns the PTM name.
void	setColor(java.awt.Color color) Sets the PTM color.
void	setProfile(double[][] profile) Sets the profile.
void	setPtmName(java.lang.String ptmName) Sets the PTM name.

Methods inherited from class java.lang.Object

clone, equals, finalize, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait

Field Detail

SCORE_1_ROW_INDEX

public static final int SCORE_1_ROW_INDEX

The score above the sequence row index.

See Also:

Constant Field Values

SCORE_2_ROW_INDEX

public static final int SCORE_2_ROW_INDEX

The score under the sequence row index.

See Also:

Constant Field Values

Constructor Detail

ModificationProfile

public ModificationProfile(java.lang.String ptmName,
                   double[][] profile,
                   java.awt.Color color)

Modification profile constructor.

Parameters:

ptmName - the PTM name

profile - the PTM profile

color - the PTM color

Method Detail

getPtmName

public java.lang.String getPtmName()

Returns the PTM name.

Returns:

the ptmName

setPtmName

public void setPtmName(java.lang.String ptmName)

Sets the PTM name.

Parameters:

ptmName - the ptmName to set

getProfile

public double[][] getProfile()

Returns the profile. Delta scores in the first row and a score in the second row, i.e., [d1][SCORE_1_ROW_INDEX] and [a1][SCORE_2_ROW_INDEX].

Returns:

the profile

setProfile

public void setProfile(double[][] profile)

Sets the profile. Delta scores in the first row and a score in the second row, i.e., [d1][SCORE_1_ROW_INDEX] and [a1][SCORE_2_ROW_INDEX].

Parameters:

profile - the profile to set

getColor

public java.awt.Color getColor()

Returns the PTM color.

Returns:

the color

setColor

public void setColor(java.awt.Color color)

Sets the PTM color.

Parameters:

color - the color to set