Merge branch 'wp1_module_organization' into 'master'

Update Classical MD index organization

See merge request e-cam/E-CAM-Library!36

Classical-MD-Modules/index.rst

@@ -182,8 +182,6 @@ The modules that are based on OPS, but remain separate, are:
    
     ./modules/annotated_trajectories/readme
     ./modules/ops_piggybacker/readme
-    ./modules/contact_maps/readme
-    ./modules/contact_maps_parallelization/readme
 
 Nine of these modules were part of 
 `E-CAM Deliverable 1.2 <https://www.e-cam2020.eu/deliverables/>`_. Those modules
@@ -198,6 +196,20 @@ together with the partner and typically are to facilitate or improve the scope o
 partner. The related code development for the pilot projects are open source (where the licence of the underlying
 software allows this) and are described in the modules associated with the pilot projects.
 
+More information on Classical MD pilot projects can be found on the main E-CAM website:
+
+* `Project on binding kinetics <https://www.e-cam2020.eu/pilot-project-biki/>`_
+* `Project on food and pharmaceutical proteins <https://www.e-cam2020.eu/pilot-project-food-proteins/>`_
+
+The following modules were developed specifically for the Classical MD pilot projects.
+
+.. toctree::
+    :glob:
+    :maxdepth: 1
+
+    ./modules/contact_maps/readme
+    ./modules/contact_maps_parallelization/readme
+
 Extended Software Development Workshops (ESDWs)
 ===============================================