New advances in the Clinica software platform for clinical neuroimaging studies

By Alexandre Routier, Arnaud Marcoux, Mauricio Diaz Melo, J. Guillon, Jorge Samper-Gonzlez, Junhao Wen, Simona Bottani, A. Guyot, Elina Thibeau-Sutre, M. Teichmann and 4 more. 2019

Subfields: Health Informatics, Radiology, Nuclear Medicine and Imaging

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In Radiology, Nuclear Medicine and Imaging

1. Mark D'Esposito
2. Justin Riddle
3. Mattia F. Pagnotta

Citations in the corpus

• Dynamic Causal Tractography Analysis of Auditory Descriptive Naming: An Intracranial Study of 106 Patients (2025, unknown): “…these templates as open-source material. iEEG investigators commonly use standard brain templates, such as the Montreal Neurological Institute (MNI) standard space image (Jenkinson et al., 2012) and the Desikan-Killiany atlas (Desikan et al., 2006), to visualize neural dynamics at a group level.”
• Naturalistic Audiovisual Illusions Reveal the Cortical Sites Involved in the Multisensory Processing of Speech (2025, unknown): “Briefly, a postimplantation high-resolution CT scan was aligned to a preimplantation millimetric, isometric T1-weighted MRI scan using FSL, (Jenkinson et al. 2012) FreeSurfer (Fischl 2012) or NiftyReg (Modat et al. 2014).”
• Structural and Functional Imaging of Motor Outcomes in Twins With Perinatal Stroke: A Case Report (2026, unknown): “For source analysis, the inner skull surface of the T1 images was extracted using FMRIB Software Library (FSL) brain extraction (bet2) [33].”
• Decomposing the role of alpha oscillations during brain maturation (2020, unknown): “4 (Jenkinson et al., 2012) following the ‘Diffusion parameter EStImation with Gibbs and NoisE Removal’ (DESIGNER) pipeline (Veraart et al.”
• A guide for concurrent TMS-fMRI to investigate functional brain networks (2022, methodology): “A 6 mm diameter ROI was defined with the center of mass at (Jenkinson et al., 2012; Riddle et al., 2019; Siebner et al., 2022) for putamen and”
• Neural Mechanisms of Bidirectional Visuo‐Linguistic Transformation in Interactive Communication (2026, unknown): “Preprocessing was performed using AFNI (Cox 1996; Cox and Hyde 1997), FSL 6.0.7 (Jenkinson et al. 2012), and custom MATLAB R2021b scripts.”