NygenAnalytics · saatvik-viniak · Sep 10, 2026 · Sep 11, 2026 · Sep 12, 2026 · Sep 12, 2026
diff --git a/.DS_Store b/.DS_Store
diff --git a/docs/.DS_Store b/docs/.DS_Store
diff --git a/docs/source/.DS_Store b/docs/source/.DS_Store
diff --git a/docs/source/index.md b/docs/source/index.md
@@ -36,6 +36,8 @@ stage timing, configuration detail, and limitation.
 ## Choose your starting point
 
 - {ref}`Install Scarf <installation>`
+- New to single-cell analysis? Start with {doc}`single_cell_crash_course` for the concepts
+  behind every workflow below
 - Follow the {ref}`Quick start <quickstart>` to open a prepared PBMC result and inspect its
   pipeline-selected clusters
 - Use {doc}`scanpy` to translate a Scanpy workflow and H5AD exchange

diff --git a/docs/source/single_cell_crash_course.md b/docs/source/single_cell_crash_course.md
diff --git a/docs/source/toctree.yml b/docs/source/toctree.yml
@@ -4,6 +4,8 @@ subtrees:
     entries:
       - file: installation
         title: Installation
+      - file: single_cell_crash_course
+        title: Single Cell Crash Course
       - file: quickstart
         title: Quick start
       - file: scanpy_and_seurat