Table 1. Ratio pairwise comparisons of pipelines.

	LPut		RPut		LHip		RHip		LMTG		RMTG
Comparison	t	p	t	p	t	p	t	p	t	p	t	p
ORIG vs RROT	10.99	<.0001	11.20	<.0001	12.61	<.0001	12.33	<.0001	11.16	<.0001	13.48	<.0001
ORIG vs N4BC	13.2	<.0001	13.40	<.0001	15.50	<.0001	14.57	<.0001	8.65	<.0001	13.50	<.0001
ORIG vs N4SS	-0.81	.42	-0.84	.40	-0.79	.43	-0.87	.39	-3.56	.0005	-2.73	.007
RROT vs N4BC	2.30	.02	2.57	.01	3.94	.0001	4.85	<.0001	-1.08	.28	1.70	.09
RROT vs N4SS	-1.50	.14	-1.52	.13	-1.52	.13	-1.56	.12	-4.28	<.0001	-3.64	.0004
N4BC vs N4SS	-1.62	.11	-1.65	.1	-1.69	.09	-1.77	.08	-4.26	<.0001	-3.74	.0003
N4SS vs FS	-1.67	.10	-5.78	<.0001	-34.68	<.0001	-30.52	<.0001	-18.83	<.0001	-14.76	<.0001

Significant t-values show which method of pre-processing produces regional ratios that differ significantly from one another, i.e. which two pre-processing steps produce dissimilar ratios for each region of interest. FS is only compared to N4SS as they have a similar pipeline. Also, these findings indicate that as data move along the overall pipeline that is commonly performed (Orig → RROT → N4BC → N4SS), volumes significant differ depending on the brain region of interest. Bolded values are significant at the Bonferroni corrected value of 0.05/7. L = left, R = right, Put = putamen, Hip = hippocampus, MTG = middle temporal gyrus.