public class Blosum62ColourScheme extends ResidueColourScheme
{
private static final Color LIGHT_BLUE = new Color(204, 204, 255);
public class Blosum62ColourScheme extends ResidueColourScheme
{
private static final Color LIGHT_BLUE = new Color(204, 204, 255);
private static final Color DARK_BLUE = new Color(154, 154, 255);
public Blosum62ColourScheme()
private static final Color DARK_BLUE = new Color(154, 154, 255);
public Blosum62ColourScheme()
- public ColourSchemeI getInstance(AnnotatedCollectionI coll,
- Map<SequenceI, SequenceCollectionI> hrs)
+ public ColourSchemeI getInstance(AlignViewportI view,
+ AnnotatedCollectionI coll)
public Color findColour(char res, int j, SequenceI seq,
String consensusResidue, float pid)
{
public Color findColour(char res, int j, SequenceI seq,
String consensusResidue, float pid)
{
for (char consensus : consensusResidue.toCharArray())
{
score += sm.getPairwiseScore(consensus, res);
for (char consensus : consensusResidue.toCharArray())
{
score += sm.getPairwiseScore(consensus, res);