updated Otsu-analysis on ImageJ: Removed fill-holes command

10_Method_comparison/exercise_solution/analyse_banana.ijm

@@ -26,7 +26,7 @@ for (i = 0; i < lengthOf(filelist); i++) {
 		setAutoThreshold("Otsu dark"); 
 		setOption("BlackBackground", true); 
 		run("Convert to Mask"); 
-		run("Fill Holes"); 
+		//run("Fill Holes"); 
  
 		// measure the position of this one single object 
 		run("Set Measurements...", "area redirect=None decimal=3"); 

10_Method_comparison/exercise_solution/otsu_imagej.csv

  ,Area
-1,197.906
-2,468.903
+1,197.601
+2,468.292
 3,780.640
-4,988.922
-5,1100.159
-6,1152.649
-7,1178.131
-8,1189.575
-9,1197.052
-10,1197.662
-11,1210.632
-12,1222.534
-13,1241.913
-14,1266.785
-15,1292.419
-16,1318.512
-17,1340.637
-18,1371.918
-19,1373.596
-20,1315.308
-21,1172.638
+4,988.770
+5,1099.396
+6,1148.682
+7,1172.485
+8,1183.167
+9,1188.507
+10,1183.472
+11,1187.134
+12,1189.117
+13,1205.750
+14,1238.708
+15,1275.330
+16,1307.678
+17,1331.329
+18,1369.019
+19,1373.444
+20,1313.019
+21,1171.265
 22,915.527
-23,586.243
+23,584.717
 24,222.931
 25,127.411