From 7e5b3f3f4e4dc1435259975a938299915e2be110 Mon Sep 17 00:00:00 2001
From: Sharon Yates <30626642+sharoncy@users.noreply.github.com>
Date: Tue, 26 Mar 2024 10:22:30 +0100
Subject: [PATCH] Update README.md

---
 README.md | 4 +++-
 1 file changed, 3 insertions(+), 1 deletion(-)

diff --git a/README.md b/README.md
index 8d30285..9a76beb 100644
--- a/README.md
+++ b/README.md
@@ -9,7 +9,9 @@ As input, PyNutil requires:
 1. An alignment JSON created with the QuickNII or VisuAlign software
 2. A segmentation file for each brain section with the feature-of-interests displayed in a unique RGB colour (it currently accepts many image formats: png, jpg, jpeg, etc).
 
-To run PyNutil, first fill in a test.json with the reference atlas and paths to the required input files. e.g. reference atlas volume, atlas label file, segmentation directory, and path to the alignment json (from QuickNII or VisuAlign). The atlases available in PyNutil are listed in PyNutil/metadata/config.json.
+To run PyNutil, first fill in a test.json with the reference atlas (volume and label file) and paths to the required input files. e.g. segmentation directory and path to the alignment json (from QuickNII or VisuAlign). 
+
+Note: The atlases available in PyNutil are listed in PyNutil/metadata/config.json.
 
 Then Run testOOP.py outside of the PyNutil directory (cd ..) to inititate the job. 
 
-- 
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