Table 1.

Evaluation of the MRBrainS13 images in terms of Dice coefficients (mean ± standard deviation), overall Dice coefficient and MSD [mm] (mean ± standard deviation). Four different experiments are shown, each using 5 training subjects and 15 test subjects. Top left: the network using all 3 input images in 9 network branches. Top right: the network using 2 input images (leaving out the T₁-weighted IR image) in 6 network branches. Bottom left: the network using 1 input image (only the T₂-weighted FLAIR image) in 3 network branches. Bottom right: the network using all 3 input images in 3 network branches with 3-channel input. For each experiment, from top to bottom: white matter (WM), cortical grey matter (cGM), basal ganglia and thalami (BGT), cerebellum (CB), brain stem (BS), lateral ventricular cerebrospinal fluid (lvCSF), peripheral cerebrospinal fluid (pCSF) and white matter hyperintensities (WMH). *Because no WMH were found in 1 of the 20 subjects, the average Dice and average MSD for WMH were computed over 14 of the 15 test subjects. The overall Dice for WMH was computed over all test subjects.

	3 inputs, 9 branches			2 inputs, 6 branches (no IR)
	Dice	Overall Dice	MSD [mm]	Dice	Overall Dice	MSD [mm]
WM	0.87 ± 0.02	0.87	0.31 ± 0.05	0.88 ± 0.02	0.88	0.27 ± 0.03
cGM	0.84 ± 0.01	0.84	0.24 ± 0.04	0.85 ± 0.01	0.85	0.21 ± 0.02
BGT	0.80 ± 0.03	0.79	0.64 ± 0.13	0.82 ± 0.02	0.82	0.63 ± 0.11
CB	0.91 ± 0.02	0.91	0.66 ± 0.27	0.91 ± 0.02	0.91	0.97 ± 0.66
BS	0.89 ± 0.02	0.89	0.67 ± 0.23	0.90 ± 0.02	0.90	0.62 ± 0.21
lvCSF	0.91 ± 0.03	0.90	0.30 ± 0.19	0.92 ± 0.03	0.93	0.30 ± 0.09
pCSF	0.74 ± 0.03	0.74	0.53 ± 0.10	0.71 ± 0.03	0.72	0.57 ± 0.11
WMH	0.54 ± 0.13*	0.63	3.15 ± 1.82*	0.53 ± 0.14*	0.64	2.04 ± 1.13*

	1 input, 3 branches (only FLAIR)			3 inputs, 3 branches with 3 channels
	Dice	Overall Dice	MSD [mm]	Dice	Overall Dice	MSD [mm]
WM	0.80 ± 0.03	0.81	0.57 ± 0.09	0.88 ± 0.02	0.88	0.28 ± 0.04
cGM	0.76 ± 0.01	0.76	0.39 ± 0.04	0.84 ± 0.01	0.84	0.22 ± 0.02
BGT	0.77 ± 0.02	0.77	0.87 ± 0.13	0.81 ± 0.02	0.81	0.70 ± 0.12
CB	0.88 ± 0.03	0.88	1.64 ± 1.07	0.90 ± 0.03	0.90	1.64 ± 0.96
BS	0.85 ± 0.03	0.85	0.92 ± 0.28	0.90 ± 0.02	0.90	0.68 ± 0.51
lvCSF	0.87 ± 0.05	0.89	0.65 ± 0.37	0.91 ± 0.04	0.92	0.29 ± 0.09
pCSF	0.67 ± 0.04	0.68	0.71 ± 0.11	0.73 ± 0.04	0.73	0.54 ± 0.12
WMH	0.51 ± 0.14*	0.62	2.11 ± 1.01*	0.43 ± 0.14*	0.54	3.15 ± 1.64*