Update README.md

README.md

@@ -3,5 +3,14 @@
 - helper scripts used in the IMCF workflow to register and analyse 3D volumes of mouse brain.
 - the workflow is documented on the Biozentrums internal wiki space: https://wiki.biozentrum.unibas.ch/x/xEBwEw
 
-## License
+## remap_labelimage.py
+- Fiji macro to workaround a bug in Imaris measurement
+- re-maps the reference atlas label image
+
+## atlas-analysis.ipynb
+juypter notebook example of secondary analysis:
+- label image intensity to atlas region mapping
+- aggregation of object frequency
+
+# License
 GNU GPLv3