Add document for how to export annotations from webknossos

lincbrain · Nov 1, 2024 · 6477da8 · 6477da8
1 parent d6e82b4
commit 6477da8
Show file tree

Hide file tree

Showing 5 changed files with 26 additions and 0 deletions.
diff --git a/docs/img/data_volume.png b/docs/img/data_volume.png
diff --git a/docs/img/download.png b/docs/img/download.png
diff --git a/docs/img/download2.png b/docs/img/download2.png
diff --git a/docs/img/webknossos_annotation.png b/docs/img/webknossos_annotation.png
diff --git a/docs/webknossos-export-annotation.md b/docs/webknossos-export-annotation.md
@@ -0,0 +1,26 @@
+# Export Annotations from Webknossos
+
+The following steps provide instructions for downloading annotations from webknossos. 
+
+1. Go to Annotations tab and click open on target annotation
+
+
+    ![](img/webknossos_annotation.png)
+
+2. Click on Download on dropdown menu
+
+    ![](img/download.png)
+
+3. Select "Include volume annotations as WKW" on pop out box and click on Download
+
+	![](img/download2.png)
+
+4. Unzip downloaded annotation file 
+
+5. Unzip data_Volume.zip under annotation folder 
+
+    ![](img/data_volume.png)
+
+6. Run Script webknossos_annotation.py to save into ome.zarr format following czyx direction. 
+
+