Training

Date: 31 August 2019
Venue: Department of Physics, University of Warsaw
            Ludwika Pasteura 5, 02-093 Warsaw, Poland  View map

Short Course: Simulating the brain with the Brain Simulation Platform (BSP)

This full-day short course will introduce participants to the Brain Simulation Platform (BSP) of the Human Brain Project (HBP). After the course, participants will be able to use the BSP to access HPC systems to configure and run simulations, visualize and analyze simulation results, and to form collaborative groups interested in exploring scientific issues of common interest. The course will consist of a ½ day of lectures and ½ day of hands-on tutorials. Requirements for attending this workshop include: basic knowledge of neuronal electrophysiology, neural modeling, and a user account of the HBP Collaboratory Platform (collab.humanbrainproject.eu). It is recommended that participants have experience with Python programming and the NEURON simulator.

The Virtual Brain (TVB) Workshop

This full-day workshop will introduce participants to The Virtual Brain (TVB) neuroinformatics platform. After the course, participants will be able to have a basic understanding of how models are built using TVB, how they work, and what biological properties of a neural system they represent, as well as an understanding of several research topics that can be explored using TVB. This workshop is composed of lectures and hands-on sessions that will allow participants to immediately apply the concepts from the lectures on your simulations in TVB. Requirements for the course include the latest versions of the TVB package and Git.

Navigate complex neuroanatomy and integrate neuroscience data using 3D brain atlases

This full-day course will introduce participants to workflows for spatial integration of morphological features in a 3D reference atlas. Students will be introduced to tools for spatial registration of serial microscopic images or 3D image volumes to three-dimensional reference atlases, learn how to extract labelled features from experimental image data and analyse molecular and gene expression data using the 3D atlases. The course will consist of a combination of lectures and hands-on training sessions. Students will be introduced to key concepts and methods underlying the Human Brain Project (HBP) infrastructure for data sharing, and learn how neuroscience data from different disciplines can be combined, integrated, visualized and analysed using 3D reference atlases.ce atlases, and how the 3D atlases can be utilized for analytic purposes.