George Kourousias

Francesco Guzzi, George Kourousias, Fulvio Billè et al.

Computational methods are driving high impact microscopy techniques such as ptychography. However, the design and implementation of new algorithms is often a laborious process, as many parts of the code are written in close-to-the-hardware programming constructs to speed up the reconstruction. In this paper, we present SciComPty, a new ptychography software framework aiming at simulating ptychography datasets and testing state-of-the-art and new reconstruction algorithms. Despite its simplicity, the software leverages GPU accelerated processing through the PyTorch CUDA interface. This is essential to design new methods that can readily be employed. As an example, we present an improved position refinement method based on Adam and a new version of the rPIE algorithm, adapted for partial coherence setups. Results are shown on both synthetic and real datasets. The software is released as open-source.

Francesco Guzzi, George Kourousias, Fulvio Billè et al.

X-ray Ptychography is an advanced computational microscopy technique which is delivering exceptionally detailed quantitative imaging of biological and nanotechnology specimens. However coarse parametrisation in propagation distance, position errors and partial coherence frequently menaces the experiment viability. In this work we formally introduced these actors, solving the whole reconstruction as an optimisation problem. A modern Deep Learning framework is used to correct autonomously the setup incoherences, thus improving the quality of a ptychography reconstruction. Automatic procedures are indeed crucial to reduce the time for a reliable analysis, which has a significant impact on all the fields that use this kind of microscopy. We implemented our algorithm in our software framework, SciComPty, releasing it as open-source. We tested our system on both synthetic datasets and also on real data acquired at the TwinMic beamline of the Elettra synchrotron facility.

Roberto Pugliese, George Kourousias, Francesco Venier et al.

The exponential growth of scientific literature presents significant challenges for researchers navigating the complex knowledge landscape. We propose "Agentic Publications", a novel LLM-driven framework complementing traditional publishing by transforming papers into interactive knowledge systems. Our architecture integrates structured data with unstructured content through retrieval-augmented generation and multi-agent verification. The framework offers interfaces for both humans and machines, combining narrative explanations with machine-readable outputs while addressing ethical considerations through automated validation and transparent governance. Key features include continuous knowledge updates, automatic integration of new findings, and customizable detail levels. Our proof-of-concept demonstrates multilingual interaction, API accessibility, and structured knowledge representation through vector databases, knowledge graphs, and verification agents. This approach enhances scientific communication across disciplines, improving efficiency and collaboration while preserving traditional publishing pathways, particularly valuable for interdisciplinary fields where knowledge integration remains challenging.