diff --git a/docs/functions.rst b/docs/functions.rst
index e8025c7..244549e 100644
--- a/docs/functions.rst
+++ b/docs/functions.rst
@@ -27,6 +27,13 @@ Latitude Longitude Module
    :undoc-members:
    :show-inheritance:
 
+Functional Search Module
+~~~~~~~~~~
+.. autoclass:: nmdc_notebook_tools.functional_search.FunctionalSearch
+   :members:
+   :undoc-members:
+   :show-inheritance:
+
 Collection Helpers
 ~~~~~~~~~~
 .. autoclass:: nmdc_notebook_tools.collection_helpers.CollectionHelpers
@@ -138,6 +145,13 @@ Study Subclass
    :undoc-members:
    :show-inheritance:
 
+Functional Annotation Agg Subclass
+~~~~~~~~~~
+.. autoclass:: nmdc_notebook_tools.functional_annotation_agg_search.FunctionalAnnotationAggSearch
+   :members:
+   :undoc-members:
+   :show-inheritance:
+
 Workflow Execution Subclass
 ~~~~~~~~~~
 .. autoclass:: nmdc_notebook_tools.workflow_execution_search.WorkflowExecutionSearch