Feature extraction via similarity search: application to atom finding and denoising in electron and scanning probe microscopy imaging

We develop an algorithm for feature extraction based on structural similarity and demonstrate its application for atom and pattern finding in high-resolution electron and scanning probe microscopy images. The use of the combined local identifiers formed from an image subset and appended Fourier, or...

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Autores principales: Somnath, Suhas, Smith, Christopher R., Kalinin, Sergei V., Chi, Miaofang, Borisevich, Albina, Cross, Nicholas, Duscher, Gerd, Jesse, Stephen
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Springer International Publishing 2018
Materias:
Research
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5846807/
https://www.ncbi.nlm.nih.gov/pubmed/29568723
http://dx.doi.org/10.1186/s40679-018-0052-y
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author Somnath, Suhas
Smith, Christopher R.
Kalinin, Sergei V.
Chi, Miaofang
Borisevich, Albina
Cross, Nicholas
Duscher, Gerd
Jesse, Stephen
author_facet Somnath, Suhas
Smith, Christopher R.
Kalinin, Sergei V.
Chi, Miaofang
Borisevich, Albina
Cross, Nicholas
Duscher, Gerd
Jesse, Stephen
author_sort Somnath, Suhas
collection PubMed
description We develop an algorithm for feature extraction based on structural similarity and demonstrate its application for atom and pattern finding in high-resolution electron and scanning probe microscopy images. The use of the combined local identifiers formed from an image subset and appended Fourier, or other transform, allows tuning selectivity to specific patterns based on the nature of the recognition task. The proposed algorithm is implemented in Pycroscopy, a community-driven scientific data analysis package, and is accessible through an interactive Jupyter notebook available on GitHub. ELECTRONIC SUPPLEMENTARY MATERIAL: The online version of this article (10.1186/s40679-018-0052-y) contains supplementary material, which is available to authorized users.
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spelling pubmed-58468072018-03-20 Feature extraction via similarity search: application to atom finding and denoising in electron and scanning probe microscopy imaging Somnath, Suhas Smith, Christopher R. Kalinin, Sergei V. Chi, Miaofang Borisevich, Albina Cross, Nicholas Duscher, Gerd Jesse, Stephen Adv Struct Chem Imaging Research We develop an algorithm for feature extraction based on structural similarity and demonstrate its application for atom and pattern finding in high-resolution electron and scanning probe microscopy images. The use of the combined local identifiers formed from an image subset and appended Fourier, or other transform, allows tuning selectivity to specific patterns based on the nature of the recognition task. The proposed algorithm is implemented in Pycroscopy, a community-driven scientific data analysis package, and is accessible through an interactive Jupyter notebook available on GitHub. ELECTRONIC SUPPLEMENTARY MATERIAL: The online version of this article (10.1186/s40679-018-0052-y) contains supplementary material, which is available to authorized users. Springer International Publishing 2018-03-01 2018 /pmc/articles/PMC5846807/ /pubmed/29568723 http://dx.doi.org/10.1186/s40679-018-0052-y Text en © The Author(s) 2018 Open AccessThis article is distributed under the terms of the Creative Commons Attribution 4.0 International License (http://creativecommons.org/licenses/by/4.0/), which permits unrestricted use, distribution, and reproduction in any medium, provided you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons license, and indicate if changes were made.
spellingShingle Research
Somnath, Suhas
Smith, Christopher R.
Kalinin, Sergei V.
Chi, Miaofang
Borisevich, Albina
Cross, Nicholas
Duscher, Gerd
Jesse, Stephen
Feature extraction via similarity search: application to atom finding and denoising in electron and scanning probe microscopy imaging
title Feature extraction via similarity search: application to atom finding and denoising in electron and scanning probe microscopy imaging
title_full Feature extraction via similarity search: application to atom finding and denoising in electron and scanning probe microscopy imaging
title_fullStr Feature extraction via similarity search: application to atom finding and denoising in electron and scanning probe microscopy imaging
title_full_unstemmed Feature extraction via similarity search: application to atom finding and denoising in electron and scanning probe microscopy imaging
title_short Feature extraction via similarity search: application to atom finding and denoising in electron and scanning probe microscopy imaging
title_sort feature extraction via similarity search: application to atom finding and denoising in electron and scanning probe microscopy imaging
topic Research
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5846807/
https://www.ncbi.nlm.nih.gov/pubmed/29568723
http://dx.doi.org/10.1186/s40679-018-0052-y
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