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Table 4: Number and proportion of excluded cases (extreme outliers) presented for each software for each deep GM structure
GM Structure Software Number of Outliers % Within Segmentation % Within Total Sample
Caudate nucleus FreeSurfer 1 2.8 0.02
FIRST 35 97.2 0.77
Putamen FreeSurfer 0 0.0 0.00
FIRST 37 100.0 0.82
Amygdala FreeSurfer 33 17.8 0.73
FIRST 152 82.2 3.38
Globus pallidus FreeSurfer 21 39.6 0.46
FIRST 32 60.4 0.71
Thalamus FreeSurfer 0 0.0 0.00
FIRST 29 100.0 0.64

GM Structure	Software	Number of Outliers	% Within Segmentation	% Within Total Sample
Caudate nucleus	FreeSurfer	1	2.8	0.02
Caudate nucleus	FIRST	35	97.2	0.77
Putamen	FreeSurfer	0	0.0	0.00
Putamen	FIRST	37	100.0	0.82
Amygdala	FreeSurfer	33	17.8	0.73
Amygdala	FIRST	152	82.2	3.38
Globus pallidus	FreeSurfer	21	39.6	0.46
Globus pallidus	FIRST	32	60.4	0.71
Thalamus	FreeSurfer	0	0.0	0.00
Thalamus	FIRST	29	100.0	0.64