Johannes Novotny

Johannes Novotny

Researching Medical Visualization and Deep-Learning at VRVis

Posts by Collection

patents

Methods and systems for removing occlusions in 3D ultrasound images

Buckton D.J., Schröcker G., Varchola A., Bruckner S., Gröller E., Novotny J.
US9390546B2 (2013 USPTO), WO2015065565A1 (2014 WIPO), December 2014

Methods and system for visualizing 3D ultrasound data are provided. One method includes obtaining image slices from a volumetric image data set and generating a ray profile using one or more rays through at least one of the image slices, wherein the one or more rays extend along a depth of the volumetric image data set. The method further includes identifying one or more seed points along the one or more rays and defining a clipping surface using the one or more seed points, wherein the clipping surface defines a rendering region within the volumetric image data set. The method also includes rendering a 3D image of the rendering region within the volumetric image data set. Read more

Google Patents

portfolio

publications

Developing Virtual Reality Visualizations for Unsteady Flow Analysis of Dinosaur Track Formation using Scientific Sketching

Novotny J., Tveite J., Turner M., Gatesy S., Drury F., Falkingham P., Laidlaw D.H.
Published in IEEE Transactions on Visualization and Computer Graphics, May 2019

This work summarizes the results of a two-year design study to developing virtual reality (VR) flow visualization tools for the analysis of dinosaur track creation in a malleable substrate. Using Scientific Sketching methodology, we combined input from illustration artists, visualization experts, and domain scientists to create novel visualization methods. Read more

IEEE Explore Bibtex

Multiscale Attention-Based Instance Segmentation for Measuring Crystals With Large Size Variation

Neubauer T., Berg A., Wimmer M., Lenis D., Major D., Winter P. M., De Paolis G. R., Novotny J., Lüftner D., Reinharter K., Bühler K.
Online ahead of print IEEE Transactions on Instrumentation and Measurement, December 2023

We present an instance-based DL segmentation method for vision-based automatic crystal size measurement to improve robustness and measurement accuracy by fusing information from multiple scales and focusing on the most relevant scale for each segmented image area. Read more

IEEE Explore Bibtex

talks

Visualizing Dinosaur Track Creation in Virtual Reality

November 10, 2022

Invited Seminar Talk, Erdwissenschaftliches Colloquium, Universität Wien, Vienna, Austria

A seminar talk introducing the audience to using virtual reality in scientific data exploration, using our results on flow visualization as case study. Read more

teaching

Virtual Reality Design for Science 2015 (CSCI1370)

Undergraduate course, Teaching Assistant, Brown University, Computer Science Department, 2015

This course explores the visual and human-computer interaction design process for scientific applications in immersive virtual reality. It is cross listed at Brown (as CSCI1370) and RISD (as ILLUS3340) and is co-taught by David Laidlaw from Brown Computer Science, Fritz Drury from RISD Illustration, Stephen Gatesy from Ecology and Evolutionary Biology, and Joseph Crisco from Orthopaedics and Engineering. Johannes Novotny is the TA. Read more

Interdisciplinary Scientific Visualization 2016 (CSCI1951-J)

Graduate seminar, Teaching Assistant, Brown University, Computer Science Department, 2016

Learn how to do interdisciplinary scientific visualization research, from soup to nuts, in one semester. Projects will involve the solution of scientific problems using computer graphics, modeling, and visualization. Working in small groups, students will identify scientific problems, propose solutions involving computational modeling and visualization, evaluate the proposals, design and implement the solutions, apply them to the problems, evaluate their success, and report on results. Examples might include interactive software systems, immersive virtual reality cave applications, quantitative analysis tools, or new applications of existing visualizations methods. Read more

Virtual Reality Design for Science 2017 (CSCI1370)

Undergraduate course, Teaching Assistant, Brown University, Computer Science Department, 2017

This course explores the visual and human-computer interaction design process for scientific applications in immersive virtual reality. It is cross listed at Brown (as CSCI1370) and RISD (as ILLUS3340) and is co-taught by David Laidlaw from Brown Computer Science, Fritz Drury from RISD Illustration, as well as Stephen Gatesy and Morgan Turner from Ecology and Evolutionary Biology. Johannes Novotny is the TA. Read more

Sheridan Teaching Certificate I 2017-18

Course participant, Brown University, Sheridan Center for Teaching and Learning, 2018

In the Sheridan Teaching Seminar, members of the Brown teaching community aim to improve their students’ learning and their own experiences as teachers through a reflective exploration of their own practices and beliefs about teaching. As the first of the Sheridan Center’s teaching certificate programs, the Sheridan Teaching Seminar introduces a number of topics that will help you develop and refine fundamental, evidence-based teaching skills and strategies. Throughout the seminar, you’ll reflect critically on your own teaching and learning experiences; consider how to establish inclusive learning environments that support the diverse students you’ll encounter in your teaching; practice public speaking and communication skills; apply principles of learning design; explore methods of evaluating learning; and investigate how student engagement leads to lasting and deep forms of learning. Those who are new to teaching benefit from the program’s focus on active learning, inclusive teaching, and classroom communication. Participants who have previous teaching experience or who have taken departmental pedagogy courses benefit from the program’s opportunities for cross-disciplinary exchange and continued development of their teaching practice. Read more

theses

Application of Smart Visibility on Medical 3D Ultrasound Datasets

Novotny J. (Advisors: Gröller M.E., Varchola A.)
Master Thesis - Vienna University of Technology, May 2013

Ultrasonography is one of the standard medical imaging techniques used in pregnancy examinations. It is widely available due to its low cost, portability and simple diagnostic procedure. In recent years, three-dimensional ultrasound (US) imaging has been gaining popularity in the area of prenatal care. It provides examiners with a coherent visualization of the fetus. However, within scanned 3D datasets, the fetus is often surrounded by occluding structures which reduce its visibility in the resulting visualizations. Current ultrasound machines provide several methods to remove these occluders from visualizations. These methods are often difficult to control in the real-time setting of an US examination session. As a result, the work flow of US examinations has to be interrupted in order to apply occlusion removal to selected scans. Read more

TU Wien Bibtex

Using Virtual Reality Effectively in Scientific Data Exploration - Perception, Usability and Design in Immersive Displays

Novotny J. (Advisor: Laidlaw D.H., Committee: Bowman D.A., Tompkin J.)
PhD. Thesis - Brown University, July 2020

In recent years, the rising popularity and availability of Virtual Reality (VR) systems has enabled the use of immersive display systems for scientific data exploration. This opened up a large design space for novel visualization techniques that needs to be thoroughly investigated in order to build practical software. This dissertation investigates aspects of creating effective VR visualizations from multiple angles: First, by analyzing how display fidelity affects user performance immersive data exploration situations. Here, results from a large scale study evaluating the factors of display resolution, field of view and display artifacts show their varying impact on user effectiveness depending on the exploration tasks presented. Read more

Brown Digital Repository