JAL-384 documentation on custom colours groovy examples

[jalview.git] / help / html / features / groovy.html

diff --git a/help/html/features/groovy.html b/help/html/features/groovy.html
index d9bf76e..ead4436 100644 (file)
--- a/help/html/features/groovy.html
+++ b/help/html/features/groovy.html
@@ -111,6 +111,15 @@ print currentAlFrame.getTitle();</pre>
       href="../groovy/featuresCounter.html">featuresCounter.groovy</a>
     example for more information.
   </p>
+  <p><a name="groovyColours"/>
+    <em>Creating custom colourschemes</em><br/>
+    You can create your own alignment colourschemes with a groovy script. We've provided two examples:<br/>
+    <ul>
+    <li><a href="http://www.jalview.org/examples/groovy/colourConserved.groovy">colourConserved.groovy</a> creates an 'Conserved' colourscheme - similar to the classic <a href="http://www.nrbsc.org/old/gfx/genedoc/">GeneDOC</a> shading model.</li>
+    <li><a href="http://www.jalview.org/examples/groovy/colourUnconserved.groovy">colourUnconserved.groovy</a> creates an 'Unconserved' colourscheme, where any unconserved residues are coloured pink.</li>
+    
+    </ul>
+  </p>
 
 </body>
 </html>