Automated TEM. Software, Data Management and Advanced Analysis

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Workshop - April 13, 2026


Join us to explore current advances in automated TEM in this interactive workshop designed to foster discussion, collaboration, and direct interaction with researchers.

DATE: APRIL 13, 2026
TIME: 9:30 AM - 11:30 AM CET
LOCATION: ONLINE


Organized by Euro-BioImaging ERIC and CERIC-ERIC within the IMPRESS Project’s training activities, this workshop combines presentations on recent technological developments in TEM with interactive sessions designed to gather feedback from the community. Participants will be invited to contribute ideas and perspectives that may help shape future directions in the field. 

With a focus on Automated TEM: Software, Data Management and Advanced Analysis, the workshop highlights recent developments in the automation of Transmission Electron Microscopy, including software tools for experiment automation, approaches to integrated data management, and advanced, increasingly AI-driven analysis methods. It will explore how these tools support more efficient and reproducible research, from data acquisition to interpretation. A live session will demonstrate how experimental data can be processed in real time, from denoising and analysis to the generation of digital twins ready for further simulation and study. 


Agenda


1. WELCOME AND INTRODUCTION
Enzo Rotunno, CNR-Institute of Nanoscience (CNR-Nano)

2. AUTOMATING MAGNETIC REVERSAL EXPERIMENT IN THE TEM USING PYTHON
Kristian Tveitstøl, Norwegian University of Science and Technology (NTNU)

3. MODAMA-AGENT: USER-FRIENDLY DATA MANAGEMENT IN THE LAB
Alexander Clausen, Forschungszentrum Jülich (FZJ) 

4. FROM ATOMS TO DIGITAL TWINS: AUTOMATED (S)TEM WORKFLOWS FOR QUANTUM DEVICES AND OTHER APPLICATIONS
Ivan Pinto, Catalan Institute of Nanoscience and Nanotechnology (ICN2), and Marc Botifoll, Forschungszentrum Jülich (FZJ) 

5. CLOSING REMARKS

Who Should Attend?

The workshop welcomes both IMPRESS consortium partners and external participants with an interest in Transmission Electron Microscopy. This includes researchers, microscope operators and users, as well as industry representatives, technology developers, IT specialists, and members of the wider scientific and technical community. 

It is particularly relevant for those interested in recent developments in automation, data management, and advanced analysis in TEM, and for anyone looking to engage with emerging approaches and contribute their perspective to ongoing discussions in the field.

Registration

Participants interested in attending can register here:

Register

 

For more information, contact the organizers:

MARCELLO TURCONI
marcello.turconi@ceric-eric.eu

AYOUB EL GHADRAOUI
ayoub.elghadraoui@eurobioimaging.eu

Session Details


Automating magnetic reversal experiment in the TEM using Python

Kristian Tveitstøl (NTNU)

During this session, an open-source python software for magnetic imaging will be presented and demonstrated for in-situ STEM-DPC of a magnetic reversal process in a permalloy nanomagnet array. This includes using the remanent field from the objective lens as an applied external magnetic field, and both rotating and tilting the sample to control the direction and magnitude of this field.

Modama-agent: user-friendly data management in the lab

Alexander Clausen (FZJ)

Electron microscopes these days are heterogeneous and sometimes complicated IT systems. They come with a local lab network, and often with devices from multiple vendors that generate experimental data. We propose a user-friendly data ingestion system, which integrates all data generating systems of a lab network, enables easier automation of experiments and streamlines research data management at the microscope.


From Atoms to Digital Twins: Automated (S)TEM Workflows for Quantum Devices and Other Applications

Ivan Pinto (ICN2) and Marc Botifoll (FZJ) 

Atomic-resolution (S)TEM is central to understanding how defects and interfaces control device performance, but the full pipeline from raw images to quantitative, device-relevant insights remains painfully slow and expertdependent. In this live presentation and handson tutorial, we introduce a physicsguided AI workflow that automates holistic (S)TEM analysis,from crystallography and strain mapping to 3D digital twin generation of realistic heterostructures. During the session, we will run these tools live: loading experimental data, denoising it, extracting structural and strain fields, and generating digital twins ready for downstream simulations.