干旱区生态环境知识资源中心(Arid): Clinica: An Open-Source Software Platform for Reproducible Clinical Neuroscience Studies

Arid

DOI	10.3389/fninf.2021.689675
	Clinica: An Open-Source Software Platform for Reproducible Clinical Neuroscience Studies
	Routier, Alexandre; Burgos, Ninon; Diaz, Mauricio; Bacci, Michael; Bottani, Simona; El-Rifai, Omar; Fontanella, Sabrina; Gori, Pietro; Guillon, Jeremy; Guyot, Alexis; Hassanaly, Ravi; Jacquemont, Thomas; Lu, Pascal; Marcoux, Arnaud; Moreau, Tristan; Samper-Gonzalez, Jorge; Teichmann, Marc; Thibeau-Sutre, Elina; Vaillant, Ghislain; Wen, Junhao; Wild, Adam; Habert, Marie-Odile; Durrleman, Stanley; Colliot, Olivier
通讯作者	Colliot, O (corresponding author), INRIA, Aramis Project Team, Paris, France. ; Colliot, O (corresponding author), Sorbonne Univ, Paris, France. ; Colliot, O (corresponding author), Paris Brain Inst, Inst Cerveau, ICM, Paris, France. ; Colliot, O (corresponding author), INSERM, Paris, France. ; Colliot, O (corresponding author), CNRS, Paris, France. ; Colliot, O (corresponding author), Hop La Pitie Salpetriere, AP HP, Paris, France.
来源期刊	FRONTIERS IN NEUROINFORMATICS
EISSN	1662-5196
出版年	2021
卷号	15
英文摘要	We present Clinica ((www.clinica.run), an open-source software platform designed to make clinical neuroscience studies easier and more reproducible. Clinica aims for researchers to (i) spend less time on data management and processing, (ii) perform reproducible evaluations of their methods, and (iii) easily share data and results within their institution and with external collaborators. The core of Clinica is a set of automatic pipelines for processing and analysis of multimodal neuroimaging data (currently, T1-weighted MRI, diffusion MRI, and PET data), as well as tools for statistics, machine learning, and deep learning. It relies on the brain imaging data structure (BIDS) for the organization of raw neuroimaging datasets and on established tools written by the community to build its pipelines. It also provides converters of public neuroimaging datasets to BIDS (currently ADNI, AIBL, OASIS, and NIFD). Processed data include image-valued scalar fields (e.g., tissue probability maps), meshes, surface-based scalar fields (e.g., cortical thickness maps), or scalar outputs (e.g., regional averages). These data follow the ClinicA Processed Structure (CAPS) format which shares the same philosophy as BIDS. Consistent organization of raw and processed neuroimaging files facilitates the execution of single pipelines and of sequences of pipelines, as well as the integration of processed data into statistics or machine learning frameworks. The target audience of Clinica is neuroscientists or clinicians conducting clinical neuroscience studies involving multimodal imaging, and researchers developing advanced machine learning algorithms applied to neuroimaging data.
英文关键词	neuroimaging software pipeline data processing and analysis machine learning multimodal neuroimaging data
类型	Article
语种	英语
开放获取类型	Green Published, Green Submitted, gold
收录类别	SCI-E
WOS记录号	WOS:000692871800001
WOS关键词	DIFFEOMORPHIC IMAGE REGISTRATION ; HUMAN CEREBRAL-CORTEX ; BRAIN ; SEGMENTATION ; ATLAS ; MRI ; VISUALIZATION ; PARCELLATION ; TRACTOGRAPHY ; MOVEMENT
WOS类目	Mathematical & Computational Biology ; Neurosciences
WOS研究方向	Mathematical & Computational Biology ; Neurosciences & Neurology
资源类型	期刊论文
条目标识符	http://119.78.100.177/qdio/handle/2XILL650/363327
作者单位	[Routier, Alexandre; Burgos, Ninon; Bacci, Michael; Bottani, Simona; El-Rifai, Omar; Fontanella, Sabrina; Gori, Pietro; Guillon, Jeremy; Guyot, Alexis; Hassanaly, Ravi; Jacquemont, Thomas; Lu, Pascal; Marcoux, Arnaud; Samper-Gonzalez, Jorge; Thibeau-Sutre, Elina; Vaillant, Ghislain; Wen, Junhao; Wild, Adam; Durrleman, Stanley; Colliot, Olivier] INRIA, Aramis Project Team, Paris, France; [Routier, Alexandre; Burgos, Ninon; Bacci, Michael; Bottani, Simona; El-Rifai, Omar; Fontanella, Sabrina; Gori, Pietro; Guillon, Jeremy; Guyot, Alexis; Hassanaly, Ravi; Jacquemont, Thomas; Lu, Pascal; Marcoux, Arnaud; Moreau, Tristan; Samper-Gonzalez, Jorge; Teichmann, Marc; Thibeau-Sutre, Elina; Vaillant, Ghislain; Wen, Junhao; Wild, Adam; Durrleman, Stanley; Colliot, Olivier] Sorbonne Univ, Paris, France; [Routier, Alexandre; Burgos, Ninon; Bacci, Michael; Bottani, Simona; El-Rifai, Omar; Fontanella, Sabrina; Gori, Pietro; Guillon, Jeremy; Guyot, Alexis; Hassanaly, Ravi; Jacquemont, Thomas; Lu, Pascal; Marcoux, Arnaud; M...
推荐引用方式 GB/T 7714	Routier, Alexandre,Burgos, Ninon,Diaz, Mauricio,et al. Clinica: An Open-Source Software Platform for Reproducible Clinical Neuroscience Studies[J],2021,15.
APA	Routier, Alexandre.,Burgos, Ninon.,Diaz, Mauricio.,Bacci, Michael.,Bottani, Simona.,...&Colliot, Olivier.(2021).Clinica: An Open-Source Software Platform for Reproducible Clinical Neuroscience Studies.FRONTIERS IN NEUROINFORMATICS,15.
MLA	Routier, Alexandre,et al."Clinica: An Open-Source Software Platform for Reproducible Clinical Neuroscience Studies".FRONTIERS IN NEUROINFORMATICS 15(2021).