The SAIN (Small Animal Imaging Network), which brings together scientists involved in small animal imaging at the national level, organizes Advanced Seminars in Small Animal In Vivo Imaging (SAIPAs).
SAIPAs consist of a series of webinars on three topics:
S1: Development of advanced MRI image acquisition sequences. Leaders: Emeline Ribot
& Aurélien Trottier (RMSB, Bordeaux), Denis Grenier (Creatis, Lyon) + a Bruker correspondent.
S2: Image preprocessing and visualization. Leaders: Benjamin Lemasson (GIN, Grenoble),
Sébastien Mériaux (NeuroSpin, Saclay), Sorina Pop (Créatis Lyon).
S3: Machine learning-based analysis methods. Leaders: Benjamin Lemasson (GIN,Grenoble), Vincent Noblet (Icube, Strasbourg), Sorina Pop (Créatis Lyon).
The target audience is students and researchers involved in projects based on small animal imaging and interested in advanced techniques for acquiring, processing, and analyzing these images.
The SAIPAs have multiple objectives: to promote and disseminate the expertise of SAIN group members,
to train researchers in advanced techniques in the field of in vivo imaging of small animals, and to raise awareness among participants about sharing data and tools in this field (compliance with the 3Rs policy, open data, traceability of treatments). SAIPAs will benefit from the FLI-IAM infrastructure for data management and pipeline execution.
The first webinar planned as part of S2 Image Preprocessing and Visualization is scheduled for May 19, 2022 (details below). Others will follow in the fall!
This first webinar will focus on MP3, an open-source software program developed at the Grenoble Institute of Neuroscience for preclinical and clinical image processing.
Objectives: Presentation and introduction to MP3: open source software designed for
preclinical and clinical image processing.
This Matlab toolbox provides a graphical interface dedicated to medical image processing.
Here are the most important tools included in MP3:I) Loading and conversion of medical images (e.g., DICOM, NIFTI, Bruker, etc.) to nifti/jsonformat
II) An image viewer (2D to 5D data)
III) A graphical interface for creating and executing complex analysis pipelines (e.g., registration, parametric map calculations, etc.)
IV) Image analysis tools (e.g., ROIs, point clouds, etc.)
Hours: Half day (May 19, 2022, 1:30 p.m. to 5:30 p.m.)
Equipment: A computer with Matlab 2017 (or later) + image processing toolbox + Java 8 (or later)
Presenters: Benjamin Lemasson (Inserm Research Center), Clément Brossard (PhD student), and Aurélien Delphin
(PhD student)
References: Brossard et al. Frontiers in Neuroinformatics 2021 ; https://github.com/nifm-gin/MP3
Registration via : https://survey.creatis.insa-lyon.fr/index.php/129184?lang=fr
