added exercise data

11_Hypothesis_testing/exercise_embryos/automatic/Results.csv

+ ,Area
+1,3224
+2,3137
+3,2653
+4,2442
+5,1145
+6,2558
+7,2768
+8,1485
+9,2731
+10,2515
+11,2756
+12,2430
+13,3200
+14,2226
+15,3335
+16,132
+17,2196
+18,2668
+19,2897
+20,2952
+21,2913
+22,2897
+23,1353
+24,2061
+25,3103
+26,2860
+27,2618
+28,2639
+29,2113
+30,166
+31,155
+32,1827
+33,568

11_Hypothesis_testing/exercise_embryos/automatic/process_embryos.ijm

+// clean up first
+run("Close All");
+roiManager("reset");
+
+// load sample data
+run("Embryos (42K)");
+
+// convert it to make it processable
+run("8-bit");
+
+// duplicate the image before we process it
+run("Duplicate...", " ");
+
+// blur it a bit to remove noise
+run("Gaussian Blur...", "sigma=2");
+setAutoThreshold("Default");
+
+// Segmentation
+setOption("BlackBackground", true);
+run("Convert to Mask");
+
+// Binary image postprocessing
+run("Fill Holes");
+run("Watershed");
+run("Erode");
+run("Erode");
+run("Erode");
+
+run("Dilate");
+run("Dilate");
+run("Dilate");
+
+// configure: area measurement
+run("Set Measurements...", "area redirect=None decimal=3");
+
+// measure area and show ROIs in ROI manager
+run("Analyze Particles...", "display add");
+
+// visualize results on original image
+close();
+roiManager("show all with labels");
\ No newline at end of file

11_Hypothesis_testing/exercise_embryos/manual/Results.csv

+ ,Area
+1,2128
+2,1640
+3,2828
+4,2560
+5,2560
+6,2644
+7,2368
+8,2632
+9,2468
+10,2672
+11,2552
+12,3124
+13,2536
+14,3016
+15,3620
+16,3308
+17,2552
+18,2732
+19,2732
+20,3532
+21,3124
+22,3532
+23,1648
+24,2732
+25,3176
+26,2732