Topological Data Analysis Made Easy with the Topology
IEEE VIS 2018 Tutorial
Sunday, Oct 21: 2:20pm-6:00pm
Room Paris, IEEE VIS, Berlin, Germany.
If you plan to attend this tutorial, we invite you to bring your own
laptop, on which you would have downloaded the tutorial
data package available below.
Moreover, we also invite you to install before the tutorial the
git master version of TTK (see the instructions on the installation page). This installation procedure
takes approximately 1 hour.
Alternatively, you can choose the easier option of downloading
a pre-installed Linux virtual machine
containing all the necessary software and data packages (link below).
Tutorial data package
Pre-installed virtual machine
(Ubuntu 18.04, requires
Detailed tutorial entry
This tutorial presents topological methods for the analysis and
visualization of scientific data from a user's perspective, with the
Topology ToolKit (TTK), a recently released open-source library for
topological data analysis. Topological methods have gained considerably
in popularity and maturity over the last twenty years and success
stories of established methods have been documented in a wide range of
applications (combustion, chemistry, astrophysics, material sciences,
etc.) with both acquired and simulated data, in both post-hoc and
in-situ contexts. While reference textbooks have been published on the
topic, no tutorial at IEEE VIS has covered this area in recent years,
and never at a software level
and from a user's
. This tutorial fills this gap by providing a
beginner's introduction to topological methods for practitioners,
researchers, students, and lecturers. In particular, instead of focusing
on theoretical aspects and algorithmic details, this tutorial focuses on
how topological methods can be useful in practice for concrete data
analysis tasks such as segmentation, feature extraction or tracking.
The tutorial describes in detail how to achieve these tasks with TTK.
First, after an introduction to topological methods and their
application in data analysis, a brief overview of TTK's main entry point
for end users, namely ParaView, will be presented. Second, an overview
of TTK's main features will be given. A running example will be
described in detail, showcasing how to access TTK's features via
ParaView, Python, VTK/C++, and C++. Third, hands-on sessions will
concretely show how to use TTK in ParaView for multiple, representative
data analysis tasks. Fourth, the usage of TTK will be presented for
developers, in particular by describing several examples of
visualization and data analysis projects that were built on top of TTK.
Finally, some feedback regarding the usage of TTK as a teaching platform
for topological analysis will be given. Presenters of this tutorial
include experts in topological methods, core authors of TTK as well as
active users, coming from academia, labs, or industry. A large part of
the tutorial will be dedicated to hands-on exercises and a rich material
package (including TTK pre-installs in virtual machines, code, data,
demos, video tutorials, etc.) will be provided to the participants. This
tutorial mostly targets students, practitioners and researchers who are
not experts in topological methods but who are interested in using them
in their daily tasks. We also target researchers already familiar to
topological methods and who are interested in using or contributing to
- Guillaume Favelier, Sorbonne Universite
- Charles Gueunet, Kitware, Sorbonne Universite
- Attila Gyulassy, SCI Institute, University of Utah
- Julien Jomier, Kitware
- Joshua A. Levine, University of Arizona
- Jonas Lukasczyk, TU Kaiserslautern
- Daisuke Sakurai, Zuse Institute Berlin
Soler , Total, Sorbonne Universite
- Julien Tierny, CNRS, Sorbonne Universite
- Will Usher, SCI Institute, University of Utah
- Qi Wu, SCI Institute, University of Utah & UC Davis
- 2:20pm Preliminaries (60 minutes)
- 2:20pm General introduction: Julien Tierny, 5 minutes
- 2:25pm Introduction to topological methods for data analysis: Attila
Gyulassy, 30 minutes
- 2:55pm Quick introduction to ParaView's user interface: Charles Gueunet,
- 3:30pm Hands-on Exercises (70 minutes)
- 3:30pm General usage of TTK: Julien Tierny, 10 minutes
- 3:40pm Segmenting medical data with merge trees: Charles Gueunet, 20
- 4:00pm Extracting filament structures with the Morse-Smale complex:
Guillaume Favelier, 20 minutes
- 4:20pm Topology-aware data compression: Maxime Soler, 20 minutes
- 4:50pm Advanced Usage (60 minutes)
- 4:50pm TTK's architecture and core data structures: Will Usher, 10
- 5:00pm Topology driven volume rendering with TTK: Qi Wu, 10 minutes
- 5:10pm Advanced data analysis with TTK: Jonas Lukasczyk, 10 minutes
- 5:20pm Bivariate data analysis with TTK: Daisuke Sakurai, 10 minutes
- 5:30pm TTK as a teaching platform: Joshua Levine, 15 minutes
- 5:45pm Concluding remarks: Julien Tierny, 5 minutes
· General introduction (Julien Tierny) - Slides
· Introduction to topological methods for data analysis
This talk will present the core tools in topological data analysis (the Persistence diagram, the Reeb graph and its variants, annd the Morse-Smale complex ). In particular, it will detail how these tools can be used for data segmentation and feature extraction.
· Quick introduction to ParaView's user interface (Charles
Gueunet) - Slides
This talk will provide a brief description of ParaView's main interface, in order to support its usage for beginners in the subsequent hands-on session. This will cover the usage of filters, pipeline design and view manipulation, state files backups and Python exports.
· General usage of TTK (Julien Tierny) - Slides
This talk will briefly describe TTK's usage philosophy. It will briefly present
how TTK can be used from ParaView, Python, VTK/C++ or C++.
· Segmenting medical data with merge trees (Charles
Gueunet) - Slides
This hands-on TTK/ParaView exercise will be a step-by-step tutorial showing how
to extract individual bones in a medical CT scan interactively with merge
· Extracting filament structures with the Morse-Smale
(Guillaume Favelier) - Slides
This hands-on TTK/ParaView exercise will show step-by-step how to extract filament structures with the Morse-Smale complex on chemistry data.
· Topology-aware data compression (Maxime Soler) -
This hands-on TTK/ParaView exercise will show step-by-step how to compress data while guaranteeing feature preservation.
· TTK's architecture and core data structures (Will Usher)
This talk will present TTK's architecture.
· Topology driven volume rendering with TTK (Qi Wu) - Slides
This talk will present topo-vol, an implementation of topology-driven volume
rendering built on top of TTK.
· Advanced data analysis with TTK (Jonas Lukasczyk) - Slides
This talk will describe the processing of the SciVis 2018 contest data with
· Bivariate data analysis with TTK (Daisuke Sakurai) - Slides
This talk will describe a user interface for bivariate data exploration built on
top of TTK.
· TTK as a teaching platform (Joshua Levine) - Slides
This talk will provide feedback about our experience in using TTK in our
topological data analysis classes.
· Concluding remarks (Julien Tierny) - Slides
Pictures of the tutorial
TTK Technical presentation at IEEE VIS 2017 (for advanced users)
TTK Technical report (for advanced users)
TTK user forum
· Using TTK in-situ with Catalyst:
· Using TTK with Python:
· Using TTK with VTK/C++:
· Using TTK with pure C++:
· Extending TTK with a new module:
Online tutorial (computation of Betti numbers)
· TTK developer documentation