Workshop: Explore, Quantify and Share Big Image Data

Date 25-26 June, 2018

Venue: Biozentrum Basel

We would like to draw your attention to the upcoming workshop event organized by the Biozentrum Basel and arivis AG prior to the arivis customer meeting.

Hands-on sessions of maximum of two hours, each one limited to a maximum 5 participants. Registration is mandatory and registered participants are encouraged to bring their own data. The workshop is free of charge for registered participants. Online registration is now open.

June 25, 2018 10 am - 12 pm Presentations by Dr. Wolf Heusermann (Biozentrum) and Dr. Tamara Manuelian (arivis AG) and software demo
From 1 pm onwards: hands-on sessions open to pre-registration
June 26, 2018 10 am – 4 pm arivis customer meeting

Why arivis Vision4D:

arivis Vision4D software is the state-of-the-art software to handle 3D (space), 4D (space and time) and 5D (space, time and channels) large data sets. The software allows to display and automatically quantify any biological data in a user friendly interface. Imaging solutions by arivis are premier in handling even big data files of several hundred gigabytes up to terabyte range- always in an interactive and highly-performant way. This behavior is key to all arivis imaging solutions, and as opposed to other commercial solutions, the arivis in-built strategies, including what is called the Image Core Technology, will guarantee the fast-access usage and robustness of the software even when run on standard PC`s with regular configuration. As a consequence, low-configuration hardware (in terms of RAM, CPU) like regular lab PC`s or notebooks are sufficiently equipped to work with arivis Vision4D as likewise high-performance Image Analysis Workstations.
A typical imaging workflow in this software suite may start with the transformation of the original image data (stitch, fuse, resample), when required followed by a correctional step (drift, background) before the rendering of an image stack or time-dependent series is optimized and possibly reported as a still image screenshot or animated movie at highest-chosen image resolution (Full HD, 360°). Tools for adjustment and color mapping, as well as reporting of changes (bookmarking, audit trail and history) are easily accessible. Meaningful statistical output is gained by applying arivis image analysis and tracking routines in an automated fashion, post-processing and editing is possible by a number arivis tools which allow to simultaneous examine and link views in different dimensions, to link segmentation results with the numerical output and much more.
During the hands-on session participants will learn more about visualization techniques and analysis strategies using arivis Vision4D and provided demo image data, and if preferred, on own imagery (please indicate upon registration).

Why arivis InViewR:

During the past few years, virtual reality (VR) applications are attracting more and more awareness in the Life Science as well as Material Sciences research as they are powerful in an unreached multidimensional manner. VR allows to render, examine and to quantify biomedical images from multi-fold perspectives. arivis InViewR is a newly in rapid development virtual reality software used to display and semi-automatically quantify large biological image data in 3D (space), 4D (space and time), 5D (space, time and channels) environment. The software is used to navigate interactively through images and it is especially useful for scientists working in neuroscience, developmental biology, cell biology, cancer research and immunology.
During the hands on session participants can navigate in a virtual reality environment across the sample, render region of interests from any angles and positions and make 3D/4D measurements that on a normal computer screen are rather difficult or impossible to perform.
Both arivis software packages, arivis Vision4D as well as arivis InViewR, can be used to render microscopy images from various modalities such as light sheet, confocal (CLSM), 2-PM, electron microscopy, computer tomography and magnetic resonance tomography data.
The license and part of the hardware for the workshop is provided by arivis AG.
arivis 4D software is already available at the University Basel and the Biozentrum`s Imaging Core Facility (IMCF) and campus members can use it after previous introduction.  

Looking forward to see many of you at the workshop!

For more information please contact


Monday, 2018, June 25 to Tuesday, 2018, June 26