X-Git-Url: http://woldlab.caltech.edu/gitweb/?p=mussa.git;a=blobdiff_plain;f=doc%2Fmanual%2Fmussagl_manual.rst;h=b980016da46a4b646aca913e529b67fde049c9c7;hp=df5426f561d53b5469b21289cb9916d09c99e0cd;hb=a36499bc310cb1efd29fc9fe5e05e6e0117de4c8;hpb=f7ee30e281655c4ada1fa9033fb82a7a3610f775

diff --git a/doc/manual/mussagl_manual.rst b/doc/manual/mussagl_manual.rst
index df5426f..b980016 100644
--- a/doc/manual/mussagl_manual.rst
+++ b/doc/manual/mussagl_manual.rst
@@ -42,10 +42,10 @@ Status
 ..
 
   Major New Features
-  ------------------
+  .. ------------------
   
   Change Log
-  ----------
+  .. ----------
   
   .. INSERT CHANGE LOG HERE
   .. END INSERT CHANGE LOG
@@ -268,13 +268,15 @@ open.
 
 If you would like to see an example, you can load the
 **mck3test.mupa** file in the examples directory that comes with
-Mussagl.
+Mussagl or read the `Step 5 - Create Analysis` section from the
+`Obtaining Input Data - Continued`_ section.
 
 .. image:: images/load_mupa_dialog.png
    :alt: Load Mussa Parameters Dialog
    :align: center
 
 
+
 Load an analysis
 ~~~~~~~~~~~~~~~~
 
@@ -377,6 +379,9 @@ between the sequences (i.e. not reverse complement matches)
 The amount of sequence conservation shown will depend on how much your
 sequences are related and the `dynamic threshold`_ you are using.
 
+To **deselect**, click and drag over any white area and then release
+the mouse button.
+
 
 Blue conservation tracks
 ~~~~~~~~~~~~~~~~~~~~~~~~
@@ -394,6 +399,8 @@ to the sequence attached to the top of the blue line.
 The amount of sequence conservation shown will depend on how much your
 sequences are related and the `dynamic threshold`_ you are using.
 
+To **deselect**, click and drag over any white area and then release
+the mouse button.
 
 Zoom Factor
 ~~~~~~~~~~~