X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=help%2Fhelp%2Fhtml%2Ffeatures%2FfeaturesFormat.html;h=a2536e2298ddb44ce69425b4d2c1f6fce98797d3;hb=42e022a59de649375c8878c1d26361cb6bc89cb8;hp=02261753cce122e069cafae463055bae0191b7f7;hpb=fca7d6a803e4edc9aeee0ee39ca980d11ca13346;p=jalview.git

diff --git a/help/help/html/features/featuresFormat.html b/help/help/html/features/featuresFormat.html
index 0226175..a2536e2 100755
--- a/help/help/html/features/featuresFormat.html
+++ b/help/help/html/features/featuresFormat.html
@@ -42,7 +42,7 @@
   
   <ul>
     <li>from the command line <pre>
-<strong> -features &lt;<em>Features filename</em>&gt;</strong>
+<strong> --features &lt;<em>Features filename</em>&gt;</strong>
 </pre>
     </li>
 
@@ -202,7 +202,11 @@
     GFF data (<em>this mixed format capability was added in Jalview
       2.6</em>).
   </p>
-
+  <p>Feature attributes can be included as <code>name=value</code> pairs in GFF3 column 9, including <em>(since Jalview 2.11.1.0)</em> 'nested' sub-attributes, for example:
+  <br><code>alleles=G,A,C;AF=6;CSQ=SIFT=deleterious,tolerated,PolyPhen=possibly_damaging(0.907)</code>
+  <br>where <code>SIFT</code> and <code>PolyPhen</code> are sub-attributes of <code>CSQ</code>. This data is preserved if features are exported in GFF format (but not, currently,
+  in Jalview format).
+  </p>
   <p>
     <em>Jalview's sequence feature format</em>
   </p>