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Motivation: Seed filtering is critical in DNA read mapping, a process where billions of DNA fragments (reads) sampled from a donor are mapped onto a reference genome to identify genomic variants of the donor. Read mappers 1) quickly…

This work presents a novel self-supervised representation learning method to learn efficient representations without labels on images from a 3DPM sensor (3-Dimensional Particle Measurement; estimates the particle size distribution of…

Computer Vision and Pattern Recognition · Computer Science 2022-10-20 Prakash Chandra Chhipa , Richa Upadhyay , Rajkumar Saini , Lars Lindqvist , Richard Nordenskjold , Seiichi Uchida , Marcus Liwicki

Quantification of microstructures is crucial for understanding processing-structure and structure-property relationships in polycrystalline materials. Delineating grain boundaries in bright-field transmission electron micrographs, however,…

Motivation: Seed location filtering is critical in DNA read mapping, a process where billions of DNA fragments (reads) sampled from a donor are mapped onto a reference genome to identify genomic variants of the donor. State-of-the-art read…

Localization microscopy is an imaging technique in which the positions of individual nanoscale point emitters (e.g. fluorescent molecules) are determined at high precision from their images. This is the key ingredient in…

Image and Video Processing · Electrical Eng. & Systems 2020-10-01 Elias Nehme , Daniel Freedman , Racheli Gordon , Boris Ferdman , Lucien E. Weiss , Onit Alalouf , Reut Orange , Tomer Michaeli , Yoav Shechtman

The extensive use of pesticides and synthetic dyes poses critical threats to food safety, human health, and environmental sustainability, necessitating rapid and reliable detection methods. Raman spectroscopy offers molecularly specific…

Materials Science · Physics 2025-11-18 Quach Thi Thai Binh , Thuan Phuoc , Xuan Hai , Thang Bach Phan , Vu Thi Hanh Thu , Nguyen Tuan Hung

Momentum resolved 4D-STEM, also called center of mass (CoM) analysis, has been used to measure the long range built-in electric field of a silicon p-n junction. The effect of different STEM modes and the trade-off between spatial resolution…

Four dimensional scanning transmission electron microscopy (4D STEM) records the scattering of electrons in a material in great detail. The benefits offered by 4D STEM are substantial, with the wealth of data it provides facilitating for…

Instrumentation and Detectors · Physics 2021-12-09 Daen Jannis , Christoph Hofer , Chuang Gao , Xiaobin Xie , Armand Béché , Timothy J. Pennycook , Jo Verbeeck

A highly efficient simulation model for 2D and 3D grain growth and recrystallization was developed based on the level-set method. The model introduces modern computational concepts to achieve excellent performance on parallel computer…

Computational Physics · Physics 2017-10-25 Christian Mießen , Nikola Velinov , Günter Gottstein , Luis A. Barrales-Mora

2D materials offer an ideal platform to study the strain fields induced by individual atomic defects, yet challenges associated with radiation damage have so-far limited electron microscopy methods to probe these atomic-scale strain fields.…

Epitaxial growth has become a promising route to achieve highly crystalline continuous two-dimensional layers. However, high-quality layer production with expected electrical properties is still challenging due to the defects induced by the…

We present diffraction patterns from micron-sized areas of mono-crystalline graphite obtained with an ultracold and ultrafast electron source. We show that high spatial coherence is manifest in the visibility of the patterns even for…

Accelerator Physics · Physics 2014-01-07 M. W. van Mourik , W. J. Engelen , E. J. D. Vredenbregt , O. J. Luiten

We demonstrate a multi-beam scanning transmission electron microscopy (STEM) imaging that integrates down-sampling with super-resolution image reconstruction via a compressive sensing framework. A custom condenser aperture with six randomly…

Instrumentation and Detectors · Physics 2026-03-19 Akira Yasuhara , Takumi Sannomiya , Ryoichi Horisaki

In the scanning transmission electron microscope, both phase imaging of beam-sensitive materials and characterisation of a material's functional properties using in-situ experiments are becoming more widely available. As the practicable…

Materials Science · Physics 2024-09-20 Julie Marie Bekkevold , Jonathan J. P. Peters , Ryo Ishikawa , Naoya Shibata , Lewys Jones

Four-dimensional scanning transmission electron microscopy (4D-STEM) generates multi-gigabyte datasets, creating a growing mismatch between acquisition rates and practical storage, transfer, and interactive visualization capabilities. We…

Signal Processing · Electrical Eng. & Systems 2026-04-09 Ondrej Dyck , Andrew R. Lupini , Albina Borisevich , Miaofang Chi , Rama K. Vasudevan , Stephen Jesse

Structure determination is key to understanding protein function at a molecular level. Whilst significant advances have been made in predicting structure and function from amino acid sequence, researchers must still rely on expensive,…

Computer Vision and Pattern Recognition · Computer Science 2020-09-01 Alexander Hudson , Shaogang Gong

Nanometric inclusions filled with nitrogen, located adjacent to FenN (n = 3 or 4) nanocrystals within (Ga,Fe)N layers, are identified and characterized using scanning transmission electron microscopy (STEM) and electron energy-loss…

Automated experiments in scanning transmission electron microscopy (STEM) require rapid image segmentation to optimize data representation for human interpretation, decision-making, site-selective spectroscopies, and atomic manipulation.…

Materials Science · Physics 2024-09-23 Kamyar Barakati , Utkarsh Pratiush , Austin C. Houston , Gerd Duscher , Sergei V. Kalinin

We present annular dark field scanning transmission electron microscopy (ADF-STEM) as an efficient, fast, and non-destructive nanoscale tool for monitoring solid-state phase transition. Using metal-insulator transition in vanadium dioxide…

Deformation heterogeneities within microstructures of polycrystalline shape memory alloys (SMAs) during superelastic stressing are studied using both experiments and simulations. In situ X-ray diffraction, specifically the far-field high…