Cargando…

The Scatman: an approximate method for fast wide-angle scattering simulations

Single-shot coherent diffraction imaging (CDI) is a powerful approach to characterize the structure and dynamics of isolated nanoscale objects such as single viruses, aerosols, nanocrystals and droplets. Using X-ray wavelengths, the diffraction images in CDI experiments usually cover only small scat...

Descripción completa

Detalles Bibliográficos
Autores principales: Colombo, Alessandro, Zimmermann, Julian, Langbehn, Bruno, Möller, Thomas, Peltz, Christian, Sander, Katharina, Kruse, Björn, Tümmler, Paul, Barke, Ingo, Rupp, Daniela, Fennel, Thomas
Formato: Online Artículo Texto
Lenguaje:English
Publicado: International Union of Crystallography 2022
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9533759/
https://www.ncbi.nlm.nih.gov/pubmed/36249495
http://dx.doi.org/10.1107/S1600576722008068
_version_ 1784802412156944384
author Colombo, Alessandro
Zimmermann, Julian
Langbehn, Bruno
Möller, Thomas
Peltz, Christian
Sander, Katharina
Kruse, Björn
Tümmler, Paul
Barke, Ingo
Rupp, Daniela
Fennel, Thomas
author_facet Colombo, Alessandro
Zimmermann, Julian
Langbehn, Bruno
Möller, Thomas
Peltz, Christian
Sander, Katharina
Kruse, Björn
Tümmler, Paul
Barke, Ingo
Rupp, Daniela
Fennel, Thomas
author_sort Colombo, Alessandro
collection PubMed
description Single-shot coherent diffraction imaging (CDI) is a powerful approach to characterize the structure and dynamics of isolated nanoscale objects such as single viruses, aerosols, nanocrystals and droplets. Using X-ray wavelengths, the diffraction images in CDI experiments usually cover only small scattering angles of a few degrees. These small-angle patterns represent the magnitude of the Fourier transform of the 2D projection of the sample’s electron density, which can be reconstructed efficiently but lacks any depth information. In cases where the diffracted signal can be measured up to scattering angles exceeding ∼10°, i.e. in the wide-angle regime, some 3D morphological information of the target is contained in a single-shot diffraction pattern. However, the extraction of the 3D structural information is no longer straightforward and defines the key challenge in wide-angle CDI. So far, the most convenient approach relies on iterative forward fitting of the scattering pattern using scattering simulations. Here the Scatman is presented, an approximate and fast numerical tool for the simulation and iterative fitting of wide-angle scattering images of isolated samples. Furthermore, the open-source software implementation of the Scatman algorithm, PyScatman, is published and described in detail. The Scatman approach, which has already been applied in previous work for forward-fitting-based shape retrieval, adopts the multi-slice Fourier transform method. The effects of optical properties are partially included, yielding quantitative results for small, isolated and weakly interacting samples. PyScatman is capable of computing wide-angle scattering patterns in a few milliseconds even on consumer-level computing hardware, potentially enabling new data analysis schemes for wide-angle coherent diffraction experiments.
format Online
Article
Text
id pubmed-9533759
institution National Center for Biotechnology Information
language English
publishDate 2022
publisher International Union of Crystallography
record_format MEDLINE/PubMed
spelling pubmed-95337592022-10-13 The Scatman: an approximate method for fast wide-angle scattering simulations Colombo, Alessandro Zimmermann, Julian Langbehn, Bruno Möller, Thomas Peltz, Christian Sander, Katharina Kruse, Björn Tümmler, Paul Barke, Ingo Rupp, Daniela Fennel, Thomas J Appl Crystallogr Research Papers Single-shot coherent diffraction imaging (CDI) is a powerful approach to characterize the structure and dynamics of isolated nanoscale objects such as single viruses, aerosols, nanocrystals and droplets. Using X-ray wavelengths, the diffraction images in CDI experiments usually cover only small scattering angles of a few degrees. These small-angle patterns represent the magnitude of the Fourier transform of the 2D projection of the sample’s electron density, which can be reconstructed efficiently but lacks any depth information. In cases where the diffracted signal can be measured up to scattering angles exceeding ∼10°, i.e. in the wide-angle regime, some 3D morphological information of the target is contained in a single-shot diffraction pattern. However, the extraction of the 3D structural information is no longer straightforward and defines the key challenge in wide-angle CDI. So far, the most convenient approach relies on iterative forward fitting of the scattering pattern using scattering simulations. Here the Scatman is presented, an approximate and fast numerical tool for the simulation and iterative fitting of wide-angle scattering images of isolated samples. Furthermore, the open-source software implementation of the Scatman algorithm, PyScatman, is published and described in detail. The Scatman approach, which has already been applied in previous work for forward-fitting-based shape retrieval, adopts the multi-slice Fourier transform method. The effects of optical properties are partially included, yielding quantitative results for small, isolated and weakly interacting samples. PyScatman is capable of computing wide-angle scattering patterns in a few milliseconds even on consumer-level computing hardware, potentially enabling new data analysis schemes for wide-angle coherent diffraction experiments. International Union of Crystallography 2022-09-14 /pmc/articles/PMC9533759/ /pubmed/36249495 http://dx.doi.org/10.1107/S1600576722008068 Text en © Alessandro Colombo et al. 2022 https://creativecommons.org/licenses/by/4.0/This is an open-access article distributed under the terms of the Creative Commons Attribution (CC-BY) Licence, which permits unrestricted use, distribution, and reproduction in any medium, provided the original authors and source are cited.
spellingShingle Research Papers
Colombo, Alessandro
Zimmermann, Julian
Langbehn, Bruno
Möller, Thomas
Peltz, Christian
Sander, Katharina
Kruse, Björn
Tümmler, Paul
Barke, Ingo
Rupp, Daniela
Fennel, Thomas
The Scatman: an approximate method for fast wide-angle scattering simulations
title The Scatman: an approximate method for fast wide-angle scattering simulations
title_full The Scatman: an approximate method for fast wide-angle scattering simulations
title_fullStr The Scatman: an approximate method for fast wide-angle scattering simulations
title_full_unstemmed The Scatman: an approximate method for fast wide-angle scattering simulations
title_short The Scatman: an approximate method for fast wide-angle scattering simulations
title_sort scatman: an approximate method for fast wide-angle scattering simulations
topic Research Papers
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9533759/
https://www.ncbi.nlm.nih.gov/pubmed/36249495
http://dx.doi.org/10.1107/S1600576722008068
work_keys_str_mv AT colomboalessandro thescatmananapproximatemethodforfastwideanglescatteringsimulations
AT zimmermannjulian thescatmananapproximatemethodforfastwideanglescatteringsimulations
AT langbehnbruno thescatmananapproximatemethodforfastwideanglescatteringsimulations
AT mollerthomas thescatmananapproximatemethodforfastwideanglescatteringsimulations
AT peltzchristian thescatmananapproximatemethodforfastwideanglescatteringsimulations
AT sanderkatharina thescatmananapproximatemethodforfastwideanglescatteringsimulations
AT krusebjorn thescatmananapproximatemethodforfastwideanglescatteringsimulations
AT tummlerpaul thescatmananapproximatemethodforfastwideanglescatteringsimulations
AT barkeingo thescatmananapproximatemethodforfastwideanglescatteringsimulations
AT ruppdaniela thescatmananapproximatemethodforfastwideanglescatteringsimulations
AT fennelthomas thescatmananapproximatemethodforfastwideanglescatteringsimulations
AT colomboalessandro scatmananapproximatemethodforfastwideanglescatteringsimulations
AT zimmermannjulian scatmananapproximatemethodforfastwideanglescatteringsimulations
AT langbehnbruno scatmananapproximatemethodforfastwideanglescatteringsimulations
AT mollerthomas scatmananapproximatemethodforfastwideanglescatteringsimulations
AT peltzchristian scatmananapproximatemethodforfastwideanglescatteringsimulations
AT sanderkatharina scatmananapproximatemethodforfastwideanglescatteringsimulations
AT krusebjorn scatmananapproximatemethodforfastwideanglescatteringsimulations
AT tummlerpaul scatmananapproximatemethodforfastwideanglescatteringsimulations
AT barkeingo scatmananapproximatemethodforfastwideanglescatteringsimulations
AT ruppdaniela scatmananapproximatemethodforfastwideanglescatteringsimulations
AT fennelthomas scatmananapproximatemethodforfastwideanglescatteringsimulations