Category Archives: Webinars

ESB webinar on ITK-SNAP: Open-Source Software for Medical Image Segmentation

October 27th 2020

15:00 – 16:00 CET

Click here to register for the webinar.

The objective of this webinar is to introduce ITK-SNAP and provide an overview of its capabilities for medical image navigation and segmentation.

In this webinar, attendees will learn some of the core capabilities of ITK-SNAP:

  • Visualization of 3D medical image data
  • Labeling of anatomical structures in 3D images both manually and semi-automatically
  • Loading, editing, and saving segmentation files
  • Rotating and landmarking 3D images
  • Using the ITK-SNAP distributed segmentation service

The webinar will be Led by Dr. Paul Yushkevich (creator of ITK-SNAP) and by Dr. Alison Pouch from the Penn Image Computing and Science Laboratory.

The seminar will last 45 minutes followed by 15 minutes of Q/A from the audience. You will have the chance to ask your questions which will be addressed by the speaker at the end of the webinar. However, it would be great if you could send your question in advance while filling the registration form or by sending to Ehsan.soodmand@charite.de and/or rodrigo.romarowski@grupposandonato.it  before the start of the webinar.

Click here to register for the webinar.

The webinar will be on the GoToWebinar Platform and will be uploaded to our YouTube channel afterwards. The information to join the webinar will be sent to you after your registration.

Please subscribe to our YouTube channel! (https://www.youtube.com/esbiomech )

Looking forward to your attendance.

ESB Student Committee

4th ESB Webinar reminder: “FEBio, a Nonlinear Finite Element Solver for Biomechanics “

We remind our members about the 4th webinar of the ESB Webinar Series which will introduce the FEBio Software SuiteThe webinar will take place on March 30th 2020 at 17:00 CET.

This seminar has been co-organised by the ESB and VPHi student committees.

FEBio is a freely-available finite element solver designed specifically for solving problems in computational biomechanics and biophysics. This webinar on the FEBio software project will be focused mostly on new FEBio users and aims to:

  • Introduce FEBio and provide an overview of its capabilities.
  • Introduce FEBio Studio, a new integrated environment for setting up, running, and analyzing FEBio models.

At the end of this webinar, attendees will have learned the basic steps for working with FEBio and FEBio Studio, including how to:

  • Import surface and CAD geometry into FEBio Studio and generate FE meshes.
  • Set up boundary conditions, material parameters, and analysis settings.
  • Run the FEBio solver from within FEBio Studio.
  • Visualize and animate the FEBio results.

The webinar will be conducted by Dr. Steve Maas. He received his Master’s in Physics from the University of Antwerp, Belgium, in 2002 and his PhD in Computing from the University of Utah, USA, in 2017. Since 2005, he has been employed at the Musculoskeletal Research Laboratory at the University of Utah where he has been the lead software developer on the FEBio software project. FEBio is a finite element solver designed specifically for solving problems in computational biomechanics and biophysics. It accomplishes this by focusing on constitutive models, loading conditions, and modeling scenarios that are relevant to these research domains. Steve Maas has also created the PreView and PostView supporting software packages, which are used for pre-processing and post-processing, respectively, FEBio models. He is also the lead on the new FEBio Studio project, which is a fully integrated environment that combines many of the pre- and post-processing and solver capabilities, in a single unified interface.

The seminar will last 45 minutes followed by 15 minutes of Q/A from the audience. You will have the chance to ask your questions which will be addressed by the speaker at the end of the webinar. However, it would be great if you could send your question in advance while filling the registration form or by sending to Ehsan.soodmand@charite.de and/or rodrigo.romarowski@grupposandonato.it  before the start of the webinar.

Click here to register for the webinar.

Please Subscribe to our YouTube channel! (https://www.youtube.com/esbiomech ) and set a reminder for yourself via YouTube (https://www.youtube.com/watch?v=dFsosn8Cn0Y)

Looking forward to your attendance.

ESB Student Committee

VPHi-ESB webinar about “HIGH-THROUGHPUT MULTICELLULAR SIMULATION STUDIES WITH PHYSICELL”


The ESB endorses and co-organise this webinar of the VPHi Keynote Webinar Series will take place on 24 January 2020 at 16 CET featuring Prof Paul Macklin from Indiana University.

Abstract

Multicellular systems are complex, multiscale dynamical systems where cells interact with one another and their environment physically and chemically. To investigate these systems, at Indiana University they developed open source software including BioFVM for biological diffusion and PhysiCell: an agent-based model platform. Prof Macklin will introduce PhysiCell in a variety of problems in cancer, immunotherapy, and engineered multicellular systems. He will also show his plans for a growing, sustainable open source community and software ecosystem, including training materials, automated GUI generation for cloud-hosted models, visualization, extension with molecular-scale models, and more. Finally Prof Macklin will shows how machine learning and high performance computing (HPC) can enhance our investigations to allow high-throughput biological hypothesis testing. 

Prof Paul Macklin

Paul Macklin is a mathematician, Associate Professor, and Director of Undergraduate studies in the recently-established Department of Intelligent Systems Engineering at Indiana University. He works with biologists, modelers, and clinicians to develop and validate sophisticated 3D computer models of cancer and other multicellular systems, using the open source PhysiCell platform developed by his lab. He also works with the National Cancer Institute and the Department of Energy to co-lead a national initiative to create digital twins for the future of personalized predictive cancer medicine.

Registration linkhttps://attendee.gotowebinar.com/register/7839011435273490188

More informations

https://www.vph-institute.org/webinar/high-throughput-multicellular-simulation-studies-with-physicell.html

2nd ESB Webinar Announced: OpenSim

Jumping into Musculoskeletal Modeling with OpenSim

We are delighted to announce the second webinar of the ESB Webinar Series which will introduce the OpenSim Software. The webinar will take place on October 16th 2019 at 18:00 CEST.

OpenSim is a freely-available, open-source musculoskeletal simulation software for visualizing and simulating movement. Musculoskeletal modeling and simulation are powerful tools to help understand the complex interactions between the neuromuscular and skeletal systems during movement.

This webinar aims to:

  • Introduce the main capabilities of OpenSim, including new features from the latest release of the software
  • Demonstrate a typical pipeline of creating and visualizing a muscle-driven simulation starting with motion capture data of a subject jumping

By the end of this tutorial, attendees will learn some of the core capabilities of OpenSim, including how to:

  • Load and visualize motion capture data
  • Load and explore a musculoskeletal model
  • Visualize a motion
  • Create a dynamic simulation.

The webinar will be conducted by Dr. Jennifer Hicks. Dr. Hicks is Associate Director the National Center for Simulation in Rehabilitation Research, an NIH-funded center at Stanford University that brings state-of-the-art engineering tools to rehabilitation scientists. In addition, she is the Research and Development Manager of the OpenSim software project, guiding the project’s development team and serving as the voice of the software user/researcher.

The seminar will last 45 minutes followed by 15 minutes of Q/A from the audience. You will have the chance to ask your questions which will be addressed by the speaker at the end of the webinar. However, it would be great if you could send your question in advance while filling the registration form or by sending to Ehsan.soodmand@charite.de and/or rodrigo.romarowski@grupposandonato.it  before the start of the webinar.


Click here to register for the webinar.


October 16th 2019 18:00 CEST

Live on ESB YouTube Channel – Please Subscribe! (https://www.youtube.com/esbiomech )

Looking forward to your attendance.

ESB Student Committee