Advanced Neuroimaging Processing (PAN)
Mission
The Advanced Neuroimaging Processing Service (PAN) offers the software, space and know-how required to conduct multimodal neuroimaging studies in humans. The service consists of a multidisciplinary team, including psychologists, doctors of neuroscience, doctors of physics and engineers, enabling it to efficiently address the various steps required in neuroimaging studies: from designing magnetic resonance acquisition sequences to preparing figures for scientific publications, including statistical analysis and the development of processing pipelines.
One of the group's objectives is the development, implementation and updating of image-processing methodologies, focused mainly on magnetic resonance imaging. In addition, the service provides imaging support to other researchers, both from the hospital and from other centres.
The group maintains national and international collaborations with centres of excellence, such as the University of Pennsylvania, the University of California and the Massachusetts Institute of Technology. At national level, the group leads the CIBER neuroimaging platform.
Equipment description
The advanced processing UPS features a SuperMicro SuperServer AS-2014CS-TR computing server with the following specifications:
- CPU: AMD Epyc Milan 24C/48T @ 2.85GHz
- RAM: 8 x 32GB DDR4 RDIMM @ 3200 MHz
- GPU: NVIDIA A10, 24GB GDDR6 ECC 384-bit, 150W
The following neuroimaging toolboxes are available on this server for image processing:
- AFNI (https://afni.nimh.nih.gov/)
- ANTs (http://stnava.github.io/ANTs/)
- ASHS (https://sites.google.com/view/ashs-dox/)
- dcm2niix (https://github.com/rordenlab/dcm2niix)
- FastSurfer (https://github.com/Deep-MI/FastSurfer)
- FreeSurfer (https://surfer.nmr.mgh.harvard.edu/)
- FSL (https://fsl.fmrib.ox.ac.uk/fsl/fslwiki/)
- LCModel (http://s-provencher.com/lcmodel.shtml)
- mri_reface (https://www.nitrc.org/projects/mri_reface)
- MRtrix3 (https://www.mrtrix.org/)
- SMT (https://github.com/ekaden/smt)
- SPM (https://www.fil.ion.ucl.ac.uk/spm/)
Connectome Workbench (https://www.humanconnectome.org/software/connectome-workbench)
Services offered
The group offers services for researchers wishing to conduct neuroimaging studies, covering the entire process, from sequence design to the presentation of results. The types of images in which we have extensive experience include:
- Consultancy for the design of multimodal magnetic resonance imaging acquisition sequences.
- Storage of neuroimaging data in BIDS format.
- Multimodal image processing.
- Statistical analysis focused on neuroimaging data.
- Preparation of figures for publications.
- Writing or reviewing the methodological section of scientific publications or projects.
Technology
The types of images in which we have extensive experience include:
- Diffusion-weighted images.
- High-resolution T1- and T2-weighted structural images
- Spectroscopy images.
- Functional magnetic resonance images (both task-based and resting-state).
- Cerebral blood flow images.
Rates
Advanced Neuroimaging Processing Rates
Contact
Susana Carmona and Daniel Martín de Blas
Heads of the Advanced Neuroimaging Processing Service
Email: scarmona(ELIMINAR)@hggm.es and dmartindeblas(ELIMINAR)@hggm.es
Tel.: +34 91 586 86 42