diff --git a/actions/ost-compare-ligand-structures b/actions/ost-compare-ligand-structures
index 4b7be0de003b40974680dfbcca458b6f4a67b4f4..fc81b4f1626bad73486a02afa9e021a83de98adf 100644
--- a/actions/ost-compare-ligand-structures
+++ b/actions/ost-compare-ligand-structures
@@ -196,7 +196,7 @@ def _ParseArgs():
         dest="substructure_match",
         default=False,
         action="store_true",
-        help=("Allow incomplete target ligands."))
+        help=("Allow incomplete (ie partially resolved) target ligands."))
 
     parser.add_argument(
         "-cd",
@@ -221,7 +221,8 @@ def _ParseArgs():
         help=("Custom mapping of chains between the reference and the model. "
               "Each separate mapping consist of key:value pairs where key "
               "is the chain name in reference and value is the chain name in "
-              "model. Only has an effect if global-chain-mapping flag is set."))
+              "model. Only has an effect if the --global-chain-mapping flag "
+              "is set."))
 
     parser.add_argument(
         "-fbs",
diff --git a/modules/doc/actions.rst b/modules/doc/actions.rst
index 4bbe37c0192992d8dd5249fbdb5d7fda0de26e85..7a0b812d314daf475496a0c9b46d77caf1735d6f 100644
--- a/modules/doc/actions.rst
+++ b/modules/doc/actions.rst
@@ -388,7 +388,8 @@ Comparing two structures with ligands
 You can compare two structures with non-polymer/small molecule ligands and
 compute lDDT-PLI and ligand RMSD scores from the command line with the
 ``ost compare-ligand-structures`` action. This can be considered a command
-line interface to :class:`ost.mol.alg.ligand_scoring.LigandScorer`.
+line interface to :class:`ost.mol.alg.ligand_scoring.LigandScorer` and more
+information about arguments and outputs can be found there.
 
 Details on the usage (output of ``ost compare-ligand-structures --help``):
 
diff --git a/modules/mol/alg/pymod/ligand_scoring.py b/modules/mol/alg/pymod/ligand_scoring.py
index 72ac15d229e45fe498188d2620bfafe6721d738e..b389e4ae1ba7775e7fbe4c6c2e0619a7cb96d01e 100644
--- a/modules/mol/alg/pymod/ligand_scoring.py
+++ b/modules/mol/alg/pymod/ligand_scoring.py
@@ -204,7 +204,8 @@ class LigandScorer:
                          If None (default), a chain mapper will be initialized
                          lazily as required.
     :type chain_mapper:  :class:`ost.mol.alg.chain_mapping.ChainMapper`
-    :param substructure_match: Set this to True to allow partial target ligand.
+    :param substructure_match: Set this to True to allow incomplete (ie
+                               partially resolved) target ligands.
     :type substructure_match: :class:`bool`
     :param coverage_delta: the coverage delta for partial ligand assignment.
     :type coverage_delta: :class:`float`