NRP

The HBP Neurorobotics platform is the backbone of the EBRAINS Closed-Loop Neuroscience service. It provides access to an online, physically realistic environment within which users can simulate and use neural models (including spiking neural networks running on neuromorphic chips) composed into functional architectures, connected to physical incarnations (musculoskeletal models, robotic systems).
The functional connection of neural models to physical agents allows to explore performance of a number of tasks of interest in closed loop, spanning a range from lower level of abstraction sensorimotor tasks, to multimodal perception or dexterous motion control, to cognitive functions extending to contextual awareness and decision making.
The service allows cognitive and computational neuroscientists to explore, in an embodied setting, connections between neural models considered (their structure), their dynamical behavior (activity), and function, expressed through the physical agent. It provides roboticists direct access to cutting-edge neuroscience research, with the tools to investigate efficacy of functional neural models in addressing problems in robotics and embodied AI.
The service is currently available as an online platform accessible and usable remotely through a standard browser, or as a local version (using Docker image or through a full source installation).

Other software

All software

3D Slicer

3D Slicer is: A software platform for the analysis (including registration and interactive segmentation) and visualization (including volume rendering) of medical images and for research in image guided therapy. A free, open source software available on multiple operating systems: Linux, MacOSX and Windows Extensible, with powerful plug-in capabilities for adding algorithms and applications. Features include: Multi organ: from head to toe. Support for multi-modality imaging including, MRI, CT, US, nuclear medicine, and microscopy. Bidirectional interface for devices. There is no restriction on use, but Slicer is not approved for clinical use and intended for research. Permissions and compliance with applicable rules are the responsibility of the user.

Data analysis and visualisation

3DSpineMFE

A MATLAB® toolbox that given a three-dimensional spine reconstruction computes a set of characteristic morphological measures that unequivocally determine the spine shape.

Modelling and simulation

3DSpineS

Dendritic spines of pyramidal neurons are the targets of most excitatory synapses in the cerebral cortex and their morphology appears to be critical from the functional point of view. Thus, characterizing this morphology is necessary to link structural and functional spine data and thus interpret and make them more meaningful. We have used a large database of more than 7,000 individually 3D reconstructed dendritic spines from human cortical pyramidal neurons that is first transformed into a set of 54 quantitative features characterizing spine geometry mathematically. The resulting data set is grouped into spine clusters based on a probabilistic model with Gaussian finite mixtures. We uncover six groups of spines whose discriminative characteristics are identified with machine learning methods as a set of rules. The clustering model allows us to simulate accurate spines from human pyramidal neurons to suggest new hypotheses of the functional organization of these cells.

Data analysis and visualisationData

Other software

3D Slicer

3DSpineMFE

3DSpineS

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