|
||||||||||
PREV CLASS NEXT CLASS | FRAMES NO FRAMES | |||||||||
SUMMARY: NESTED | FIELD | CONSTR | METHOD | DETAIL: FIELD | CONSTR | METHOD |
java.lang.Objectcom.compomics.util.experiment.identification.NeutralLossesMap
public class NeutralLossesMap
This class contains the informations relative to the accounting of neutral losses
Constructor Summary | |
---|---|
NeutralLossesMap()
Constructor. |
Method Summary | |
---|---|
void |
addNeutralLoss(NeutralLoss neutralLoss,
int bStart,
int yStart)
Adds a new neutral loss to the map. |
void |
clearNeutralLosses()
Clears the mapping. |
boolean |
containsLoss(NeutralLoss neutralLoss)
Returns a boolean indicating whether a loss is implemented in the mapping. |
ArrayList<NeutralLoss> |
getAccountedNeutralLosses()
Returns an arraylist of implemented neutral losses. |
int |
getBStart(NeutralLoss neutralLoss)
Returns the amino acid where a neutral loss should start being accounted for when predicting b ions (counting from N-terminus, first aa is 1). |
int |
getYStart(NeutralLoss neutralLoss)
Returns the amino acid where a neutral loss should start being accounted for when predicting b ions (counting from N-terminus, first aa is 1). |
boolean |
isEmpty()
Returns a boolean indicating if the mapping is empty. |
void |
makeSequenceIndependant()
Makes the neutral losses sequence independant. |
Methods inherited from class java.lang.Object |
---|
clone, equals, finalize, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait |
Constructor Detail |
---|
public NeutralLossesMap()
Method Detail |
---|
public void addNeutralLoss(NeutralLoss neutralLoss, int bStart, int yStart)
neutralLoss
- the new neutral lossbStart
- the amino acid position where the neutral loss should start
being accounted starting from the N-terminus (first is 1)yStart
- the amino acid position where the neutral loss should start
being accounted starting from the C-terminus (first is 1)public void clearNeutralLosses()
public void makeSequenceIndependant()
public boolean isEmpty()
public ArrayList<NeutralLoss> getAccountedNeutralLosses()
public int getBStart(NeutralLoss neutralLoss)
neutralLoss
- the neutral loss of interest
public int getYStart(NeutralLoss neutralLoss)
neutralLoss
- the neutral loss of interest
public boolean containsLoss(NeutralLoss neutralLoss)
neutralLoss
- the neutral loss of interest
|
||||||||||
PREV CLASS NEXT CLASS | FRAMES NO FRAMES | |||||||||
SUMMARY: NESTED | FIELD | CONSTR | METHOD | DETAIL: FIELD | CONSTR | METHOD |