diff --git a/src/schema/rules/directories.yaml b/src/schema/rules/directories.yaml
index e5415e8c14..c2842619cd 100644
--- a/src/schema/rules/directories.yaml
+++ b/src/schema/rules/directories.yaml
@@ -21,9 +21,11 @@ study:
     subdirs:
       - code
       - docs
+      - rawdata
       - derivatives
       - logs
       - sourcedata
+      - phenotype
   code:
     name: code
     level: optional
@@ -32,6 +34,10 @@ study:
     name: docs
     level: optional
     opaque: true
+  rawdata:
+    name: rawdata
+    level: optional
+    opaque: true
   derivatives:
     name: derivatives
     level: optional
@@ -44,6 +50,10 @@ study:
     name: sourcedata
     level: optional
     opaque: true
+  phenotype:
+    name: phenotype
+    level: optional
+    opaque: false
 
 raw:
   root: