Understanding the impact of preprocessing pipelines on neuroimaging cortical surface analyses

N Bhagwat, A Barry, EW Dickie, ST Brown… - …, 2021 - academic.oup.com
Background The choice of preprocessing pipeline introduces variability in neuroimaging
analyses that affects the reproducibility of scientific findings. Features derived from structural …

[HTML][HTML] Fastsurfer-a fast and accurate deep learning based neuroimaging pipeline

L Henschel, S Conjeti, S Estrada, K Diers, B Fischl… - NeuroImage, 2020 - Elsevier
Traditional neuroimage analysis pipelines involve computationally intensive, time-
consuming optimization steps, and thus, do not scale well to large cohort studies with …

[HTML][HTML] Micapipe: A pipeline for multimodal neuroimaging and connectome analysis

RR Cruces, J Royer, P Herholz, S Larivière… - NeuroImage, 2022 - Elsevier
Multimodal magnetic resonance imaging (MRI) has accelerated human neuroscience by
fostering the analysis of brain microstructure, geometry, function, and connectivity across …

CAT–A computational anatomy toolbox for the analysis of structural MRI data

C Gaser, R Dahnke, PM Thompson, F Kurth, E Luders… - biorxiv, 2022 - biorxiv.org
A large range of sophisticated brain image analysis tools have been developed by the
neuroscience community, greatly advancing the field of human brain mapping. Here we …

The ANTs cortical thickness processing pipeline

NJ Tustison, BB Avants, PA Cook… - Medical imaging …, 2013 - spiedigitallibrary.org
Numerous studies have explored the relationship between cortical structure and brain
development, cognitive function, and functional connectivity. The highly convoluted cortical …

Direct cortical thickness estimation using deep learning‐based anatomy segmentation and cortex parcellation

M Rebsamen, C Rummel, M Reyes… - Human brain …, 2020 - Wiley Online Library
Accurate and reliable measures of cortical thickness from magnetic resonance imaging are
an important biomarker to study neurodegenerative and neurological disorders …

[HTML][HTML] Variations in structural MRI quality significantly impact commonly used measures of brain anatomy

AD Gilmore, NJ Buser, JL Hanson - Brain informatics, 2021 - Springer
Subject motion can introduce noise into neuroimaging data and result in biased estimations
of brain structure. In-scanner motion can compromise data quality in a number of ways and …

Harmonization of cortical thickness measurements across scanners and sites

JP Fortin, N Cullen, YI Sheline, WD Taylor, I Aselcioglu… - Neuroimage, 2018 - Elsevier
With the proliferation of multi-site neuroimaging studies, there is a greater need for handling
non-biological variance introduced by differences in MRI scanners and acquisition …

Moving beyond processing and analysis-related variation in neuroscience

X Li, NB Esper, L Ai, S Giavasis, H Jin, E Feczko, T Xu… - BioRxiv, 2021 - biorxiv.org
When fields lack consensus standards and ground truths for their analytic methods,
reproducibility can be more of an ideal than a reality. Such has been the case for functional …

System for integrated neuroimaging analysis and processing of structure

BA Landman, JA Bogovic, A Carass, M Chen, S Roy… - Neuroinformatics, 2013 - Springer
Mapping brain structure in relation to neurological development, function, plasticity, and
disease is widely considered to be one of the most essential challenges for opening new …