diff --git a/Doxyfile b/Doxyfile
index 8ea7467fe..2bd88de6c 100644
--- a/Doxyfile
+++ b/Doxyfile
@@ -644,8 +644,12 @@ INPUT                  = gtsam/base \
                          gtsam/discrete \
                          gtsam/linear \
                          gtsam/nonlinear \
-                         gtsam/slam \
-                         gtsam
+                         gtsam \
+                         gtsam_unstable/slam \
+                         gtsam_unstable/base \
+                         gtsam_unstable/geometry \
+                         gtsam_unstable/dynamics \
+                         gtsam_unstable 
 
 # This tag can be used to specify the character encoding of the source files 
 # that doxygen parses. Internally doxygen uses the UTF-8 encoding, which is