biostudies-literatureFilip PNIBIB NIH HHSNCATS NIH HHSNIDDK NIH HHSNINDS NIH HHSNational Institutes of HealthNIH HHS765-773https://www.ebi.ac.uk/biostudies/studies/S-EPMC8916973biostudies-literatureUnknown64(4)<h4>Purpose</h4>Neuroimaging pipelines have long been known to generate mildly differing results depending on various factors, including software version. While considered generally acceptable and within the margin of reasonable error, little is known about their effect in common research scenarios such as inter-group comparisons between healthy controls and various pathological conditions. The aim of the presented study was to explore the differences in the inferences and statistical significances in a model situation comparing volumetric parameters between healthy controls and type 1 diabetes patients using various FreeSurfer versions.<h4>Methods</h4>T1- and T2-weighted structural scans of healthy controls and type 1 diabetes patients were processed with FreeSurfer 5.3, FreeSurfer 5.3 HCNeuroradiologyDifferent FreeSurfer versions might generate different statistical outcomes in case-control comparison studies.PMC8916973R56DK099137KL2TR000113P30 NS076408P41 EB027061R01DK099137UL1TR000114R01 DK099137UL1 TR000114P41 EB015894KL2 TR000113R56 DK099137Mangia SFilip PSeaquist ERMoheet AGrohn HKumar AFEberly LEBednarik PSvatkova AfalseDifferent FreeSurfer versions might generate different statistical outcomes in case-control comparison studies.<h4>Purpose</h4>Neuroimaging pipelines have long been known to generate mildly differing results depending on various factors, including software version. While considered generally acceptable and within the margin of reasonable error, little is known about their effect in common research scenarios such as inter-group comparisons between healthy controls and various pathological conditions. The aim of the presented study was to explore the differences in the inferences and statistical significances in a model situation comparing volumetric parameters between healthy controls and type 1 diabetes patients using various FreeSurfer versions.<h4>Methods</h4>T1- and T2-weighted structural scans of healthy controls and type 1 diabetes patients were processed with FreeSurfer 5.3, FreeSurfer 5.3 HC2022-01-01T00:00:00Z2022 Apr2025-04-22T11:48:16.97Z2025-04-06T00:07:55.879ZS-EPMC89169733498859210.1007/s00234-021-02862-0