Nanotechnology Now

Our NanoNews Digest Sponsors

Heifer International

Wikipedia Affiliate Button

Home > Press > Novel electron tomography software using multi-GPUs by Digisens

More than only cross-correlation to align a raw tilt-series without fiducials, 3D reconstruction with iterative algorithms (SART, SIRT, OS-SART) using multi-GPUs, intuitive 3D/2D visualisation: DigiECT positions itself as a revolutionary alternative compared to existing commercial and free software.

Novel electron tomography software using multi-GPUs by Digisens

Le Bourget-du-Lac, France | Posted on October 7th, 2010

New-generation electron tomography software commercially available

Shortly after its commercial release in May 2010, Digisens is pleased to announce the growing success of its novel electron tomography software DigiECT, which is the result of a two-year fruitful collaboration with Dr. Sergio Marco, Research Director Inserm U759, Institut Curie, Orsay, France. Moreover, DigiECT has been recently adopted by IPCMS-CNRS, a french nanotechnology institute based in Strasbourg, along with two other well-renowned research centers.

Using a TEM (Transmission Electron Microscope), electron tomography is an imaging technique for advanced 3D nanocharacterization in Life Sciences as well as Materials Sciences.

Requiring only a raw tilt-series at input, DigiECT is fully compliant with all TEM brands, all image acquisition modes (BF-TEM, BF-S/TEM, DF-S/TEM or EFTEM) and schemes (linear, Saxton or user-defined). Its core philosophy relies in allowing reduced 3D reconstruction times, targeted to better image quality using iterative algorithms - best suited to cope with the missing wedge - while minimising manual interventions to save time and prevent human erros.

"We were using free software for 3D reconstruction and it was really time-consuming, even on the GPU. The alignment step has often to be corrected manually. With our recent investment in DigiECT, way faster 3D reconstruction speeds will bring us more time to achieve high-quality results" states Dr. Ovidiu Ersen, responsible of the electron tomography facility at IPCMS-CNRS.

Marker-less alignment, multi-GPUs 3D reconstruction and ergonomic visualisation

The primary step consists in automatically aligning the images without markers such as gold beads then numerically determining the location of the tilt axis in 3D (x, y, z). "This process is more than a rudimentary cross-correlation step, in order to avoid any drifts which are likely to occur along the stack: we basically track virtual markers" explains Dr. Jean-Pierre Bruandet, Digisens' Chief Technical Officer.

As everyone knows, perfect alignment is mandarory prior to the subsequent 3D reconstruction phase. As for this, unique advantages of DigiECT's 3D reconstruction module are numerous.

With Digisens' exclusive multi-GPUs technology, DigiECT is first able to make use - at the same time - of several GPU boards (Graphical Processing Units) mounted in parallel, to split and resolve the 3D reconstruction process with unparalleled speeds. For instance, a 2048 x 2048 x 512 voxels volume (8.0 GB) is resolved in 31.2 seconds per iteration (SIRT) - including I/O - using 8 GPUs (Nvidia C2050). "With the recent advent of high-resolution cameras of 16 megapixels and beyond, we now encounter bottlenecks during the 3D reconstruction process. DigiECT overcomes this issue, offering incredible processing speeds" explains Dr. Marco.

Second, users can reach optimal convergence of the 3D reconstruction since they can adjust if desired the convergence speed, a major parameter even more important than the number of iterations when using iterative algorithms. Third, DigiECT proposes to 3D reconstruct a volume using OS-SART algorithm (Ordered-Subset Simultaneous Algebraic Reconstruction Technique) to get the best possible balance between the resolution of SART and noise robustness of SIRT.

Following both alignment and 3D reconstruction stages, end-users benefit from an intuitive, user-friendly visualisation tool, featuring uppermost quality volume and isosurface rendering, high-resolution oriented cut planes extraction, advanced measurements, certified surface extraction and seamless data import or export in numerous file formats.

For more details on DigiECT browse not to mention that Digisens' team will be pleased to answer your questions at +33 (0) 686 615 513 or by email at


About Digisens
Incroporated in 2002, Digisens is a high-tech software editor located in the French Alps between Geneva and Grenoble with world-renowned customers in research, industry and healthcare in Europe and North America. Thanks to its outstanding innovation capabilities and overall mastering of multi-GPUs programming, Digisens develops high value-added 3D-imaging software solutions for X-ray computed microtomography and nanotomography (DigiXCT & DigiHCT) as well as electron tomography (DigiECT).

For more information, please click here

Maxime Wiot
Business Development Manager
Tel: +33 (0) 686 615 513

Copyright © Digisens

If you have a comment, please Contact us.

Issuers of news releases, not 7th Wave, Inc. or Nanotechnology Now, are solely responsible for the accuracy of the content.

Delicious Digg Newsvine Google Yahoo Reddit Magnoliacom Furl Facebook

Related News Press

News and information

Unconventional superconductor may be used to create quantum computers of the future: They have probably succeeded in creating a topological superconductor February 19th, 2018

Photonic chip guides single photons, even when there are bends in the road February 16th, 2018

Arrowhead Pharmaceuticals Receives Orphan Drug Designation for ARO-AAT February 15th, 2018

European & Korean Project To Demo World’s First 5G Platform During Winter Games February 15th, 2018


Laboratory Management Web Application Goes Nationwide January 9th, 2018

EC Project Aims at Creating and Commercializing Cyber-Physical-System Solutions November 14th, 2017

Leti Launches Emulator Service to Boost ROI and Speed Time to Market for European Chipmakers: Anchored by Mentor Veloce Emulator Machine, Leti’s Offer Includes Support for Design, Debug and Analysis of Results August 31st, 2017

Technology Companies Join Forces for TEM Imaging and Analysis August 3rd, 2017


Unconventional superconductor may be used to create quantum computers of the future: They have probably succeeded in creating a topological superconductor February 19th, 2018

Photonic chip guides single photons, even when there are bends in the road February 16th, 2018

Arrowhead Receives Regulatory Clearance to Begin Phase 1/2 Study of ARO-HBV for Treatment of Hepatitis B February 15th, 2018

Arrowhead Pharmaceuticals Receives Orphan Drug Designation for ARO-AAT February 15th, 2018


New method enables high-resolution measurements of magnetism February 7th, 2018

Nanometrics Selected for Fab-Wide Process Control Metrology by Domestic China 3D-NAND Manufacturer: Latest Fab Win Includes Comprehensive Suite for Substrate, Thin Film and Critical Dimension Metrology February 7th, 2018

A new radiation detector made from graphene: A new bolometer exploits the thermoelectric properties of graphene February 6th, 2018

Measuring the temperature of two-dimensional materials at the atomic level February 3rd, 2018

The latest news from around the world, FREE

  Premium Products
Only the news you want to read!
 Learn More
University Technology Transfer & Patents
 Learn More
Full-service, expert consulting
 Learn More

Nanotechnology Now Featured Books


The Hunger Project