Ptychoscopy: a user friendly experimental design tool for ptychography
Abstract Electron ptychography is a rapidly growing diffractive imaging technique providing superior image contrast, high resolution, efficient dose usage and versatile imaging conditions. Originally coming from the physical sciences, it has also become a method of interest in the life sciences. Reg...
Saved in:
| Main Authors: | , , , , , |
|---|---|
| Format: | Article |
| Language: | English |
| Published: |
Nature Portfolio
2025-07-01
|
| Series: | Scientific Reports |
| Subjects: | |
| Online Access: | https://doi.org/10.1038/s41598-025-09871-6 |
| Tags: |
Add Tag
No Tags, Be the first to tag this record!
|
| _version_ | 1849333321872441344 |
|---|---|
| author | Radim Skoupy Elisabeth Müller Timothy J. Pennycook Manuel Guizar-Sicairos Emiliana Fabbri Emiliya Poghosyan |
| author_facet | Radim Skoupy Elisabeth Müller Timothy J. Pennycook Manuel Guizar-Sicairos Emiliana Fabbri Emiliya Poghosyan |
| author_sort | Radim Skoupy |
| collection | DOAJ |
| description | Abstract Electron ptychography is a rapidly growing diffractive imaging technique providing superior image contrast, high resolution, efficient dose usage and versatile imaging conditions. Originally coming from the physical sciences, it has also become a method of interest in the life sciences. Regardless of the scientific field, the successful ptychographic reconstruction relies on various combinations of adjustable experimental parameters, along with the choice of the reconstruction algorithm. In this work we present ptychoScopy, a Python-based tool developed to simplify the selection of these parameters and aid successful experimental design. Using a $$\hbox {SmB}_{6}$$ sample, we show the influence of key parameters such as probe convergence angle, defocus and electron dose on the reconstruction quality using direct and iterative reconstruction algorithms. We investigate the influence of real and reciprocal space sampling and their influence on the speed and quality of ptychographic reconstructions. PtychoScopy simplifies experimental design and guides the researchers across diverse scientific fields in setting up successful ptychographic experiments. |
| format | Article |
| id | doaj-art-1bfa73c748944eeb89b1f05c53eca1ee |
| institution | Kabale University |
| issn | 2045-2322 |
| language | English |
| publishDate | 2025-07-01 |
| publisher | Nature Portfolio |
| record_format | Article |
| series | Scientific Reports |
| spelling | doaj-art-1bfa73c748944eeb89b1f05c53eca1ee2025-08-20T03:45:53ZengNature PortfolioScientific Reports2045-23222025-07-0115111510.1038/s41598-025-09871-6Ptychoscopy: a user friendly experimental design tool for ptychographyRadim Skoupy0Elisabeth Müller1Timothy J. Pennycook2Manuel Guizar-Sicairos3Emiliana Fabbri4Emiliya Poghosyan5PSI Center for Life Sciences, Paul Scherrer Institute, PSIPSI Center for Life Sciences, Paul Scherrer Institute, PSIEMAT, Department of Physics, University of AntwerpPSI Center for Photon Science, Paul Scherrer Institute, PSIPSI Center for Energy and Environmental Sciences, Paul Scherrer Institute, PSIPSI Center for Life Sciences, Paul Scherrer Institute, PSIAbstract Electron ptychography is a rapidly growing diffractive imaging technique providing superior image contrast, high resolution, efficient dose usage and versatile imaging conditions. Originally coming from the physical sciences, it has also become a method of interest in the life sciences. Regardless of the scientific field, the successful ptychographic reconstruction relies on various combinations of adjustable experimental parameters, along with the choice of the reconstruction algorithm. In this work we present ptychoScopy, a Python-based tool developed to simplify the selection of these parameters and aid successful experimental design. Using a $$\hbox {SmB}_{6}$$ sample, we show the influence of key parameters such as probe convergence angle, defocus and electron dose on the reconstruction quality using direct and iterative reconstruction algorithms. We investigate the influence of real and reciprocal space sampling and their influence on the speed and quality of ptychographic reconstructions. PtychoScopy simplifies experimental design and guides the researchers across diverse scientific fields in setting up successful ptychographic experiments.https://doi.org/10.1038/s41598-025-09871-6Electron ptychographyExperimental designReal- and reciprocal space sampling |
| spellingShingle | Radim Skoupy Elisabeth Müller Timothy J. Pennycook Manuel Guizar-Sicairos Emiliana Fabbri Emiliya Poghosyan Ptychoscopy: a user friendly experimental design tool for ptychography Scientific Reports Electron ptychography Experimental design Real- and reciprocal space sampling |
| title | Ptychoscopy: a user friendly experimental design tool for ptychography |
| title_full | Ptychoscopy: a user friendly experimental design tool for ptychography |
| title_fullStr | Ptychoscopy: a user friendly experimental design tool for ptychography |
| title_full_unstemmed | Ptychoscopy: a user friendly experimental design tool for ptychography |
| title_short | Ptychoscopy: a user friendly experimental design tool for ptychography |
| title_sort | ptychoscopy a user friendly experimental design tool for ptychography |
| topic | Electron ptychography Experimental design Real- and reciprocal space sampling |
| url | https://doi.org/10.1038/s41598-025-09871-6 |
| work_keys_str_mv | AT radimskoupy ptychoscopyauserfriendlyexperimentaldesigntoolforptychography AT elisabethmuller ptychoscopyauserfriendlyexperimentaldesigntoolforptychography AT timothyjpennycook ptychoscopyauserfriendlyexperimentaldesigntoolforptychography AT manuelguizarsicairos ptychoscopyauserfriendlyexperimentaldesigntoolforptychography AT emilianafabbri ptychoscopyauserfriendlyexperimentaldesigntoolforptychography AT emiliyapoghosyan ptychoscopyauserfriendlyexperimentaldesigntoolforptychography |