Package com.compomics.util.gui.protein

Class ModificationProfile

java.lang.Object

com.compomics.util.gui.protein.ModificationProfile

public class ModificationProfile
extends Object

A simple modification profile object.

Author:

Harald Barsnes

Field Summary

Fields

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

Constructor Summary

Constructors

Constructor	Description
ModificationProfile()	Empty default constructor
ModificationProfile(String ptmName, double[][] profile, Color color)	Modification profile constructor.

Method Summary

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

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 Details

ModificationProfile

public ModificationProfile()

Empty default constructor

ModificationProfile

public ModificationProfile(String ptmName,
 double[][] profile,
 Color color)

Modification profile constructor.

Parameters:

ptmName - the PTM name

profile - the PTM profile

color - the PTM color

Method Details

getPtmName

public String getPtmName()

Returns the PTM name.

Returns:

the ptmName

setPtmName

public void setPtmName(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 Color getColor()

Returns the PTM color.

Returns:

the color

setColor

public void setColor(Color color)

Sets the PTM color.

Parameters:

color - the color to set