From b122389badfcecc30e6e5fcc8f1534e5dce8b3d9 Mon Sep 17 00:00:00 2001
From: "Hannes F. Kuchelmeister" <hannes@kuchelmeister.org>
Date: Mon, 19 Jul 2021 10:51:42 +0200
Subject: [PATCH] swap x and y axis of peak finder to fix image display (this
 might however cause issues with the registration)

---
 situr/image/situ_image.py | 5 ++++-
 1 file changed, 4 insertions(+), 1 deletion(-)

diff --git a/situr/image/situ_image.py b/situr/image/situ_image.py
index 314c914..67e25f6 100644
--- a/situr/image/situ_image.py
+++ b/situr/image/situ_image.py
@@ -39,7 +39,10 @@ class PeakFinderDifferenceOfGaussian(PeakFinder):
         img = img_as_float(img_array)
         peaks = blob_dog(img, min_sigma=self.min_sigma,
                          max_sigma=self.max_sigma, threshold=self.threshold)
-        return peaks[:, 0:2]
+
+        # Swap x and y
+        peaks = peaks[:, [0, 1]] = peaks[:, [1, 0]]
+        return peaks
 
 
 class SituImage: