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FRC-QE: a robust and comparable 3D microscopy image quality metric for cleared organoids

SUMMARY: Here, we propose Fourier ring correlation-based quality estimation (FRC-QE) as a new metric for automated image quality estimation in 3D fluorescence microscopy acquisitions of cleared organoids that yields comparable measurements across experimental replicates, clearing protocols and works...

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Autores principales: Preusser, Friedrich, dos Santos, Natália, Contzen, Jörg, Stachelscheid, Harald, Costa, Érico Tosoni, Mergenthaler, Philipp, Preibisch, Stephan
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Oxford University Press 2021
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8479654/
https://www.ncbi.nlm.nih.gov/pubmed/33693580
http://dx.doi.org/10.1093/bioinformatics/btab160
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author Preusser, Friedrich
dos Santos, Natália
Contzen, Jörg
Stachelscheid, Harald
Costa, Érico Tosoni
Mergenthaler, Philipp
Preibisch, Stephan
author_facet Preusser, Friedrich
dos Santos, Natália
Contzen, Jörg
Stachelscheid, Harald
Costa, Érico Tosoni
Mergenthaler, Philipp
Preibisch, Stephan
author_sort Preusser, Friedrich
collection PubMed
description SUMMARY: Here, we propose Fourier ring correlation-based quality estimation (FRC-QE) as a new metric for automated image quality estimation in 3D fluorescence microscopy acquisitions of cleared organoids that yields comparable measurements across experimental replicates, clearing protocols and works for different microscopy modalities. AVAILABILITY AND IMPLEMENTATION: FRC-QE is written in ImgLib2/Java and provided as an easy-to-use and macro-scriptable plugin for Fiji. Code, documentation, sample images and further information can be found under https://github.com/PreibischLab/FRC-QE. SUPPLEMENTARY INFORMATION: Supplementary data are available at Bioinformatics online.
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spelling pubmed-84796542021-09-30 FRC-QE: a robust and comparable 3D microscopy image quality metric for cleared organoids Preusser, Friedrich dos Santos, Natália Contzen, Jörg Stachelscheid, Harald Costa, Érico Tosoni Mergenthaler, Philipp Preibisch, Stephan Bioinformatics Applications Notes SUMMARY: Here, we propose Fourier ring correlation-based quality estimation (FRC-QE) as a new metric for automated image quality estimation in 3D fluorescence microscopy acquisitions of cleared organoids that yields comparable measurements across experimental replicates, clearing protocols and works for different microscopy modalities. AVAILABILITY AND IMPLEMENTATION: FRC-QE is written in ImgLib2/Java and provided as an easy-to-use and macro-scriptable plugin for Fiji. Code, documentation, sample images and further information can be found under https://github.com/PreibischLab/FRC-QE. SUPPLEMENTARY INFORMATION: Supplementary data are available at Bioinformatics online. Oxford University Press 2021-03-08 /pmc/articles/PMC8479654/ /pubmed/33693580 http://dx.doi.org/10.1093/bioinformatics/btab160 Text en © The Author(s) 2021. Published by Oxford University Press. https://creativecommons.org/licenses/by/4.0/This is an Open Access article distributed under the terms of the Creative Commons Attribution License (https://creativecommons.org/licenses/by/4.0/), which permits unrestricted reuse, distribution, and reproduction in any medium, provided the original work is properly cited.
spellingShingle Applications Notes
Preusser, Friedrich
dos Santos, Natália
Contzen, Jörg
Stachelscheid, Harald
Costa, Érico Tosoni
Mergenthaler, Philipp
Preibisch, Stephan
FRC-QE: a robust and comparable 3D microscopy image quality metric for cleared organoids
title FRC-QE: a robust and comparable 3D microscopy image quality metric for cleared organoids
title_full FRC-QE: a robust and comparable 3D microscopy image quality metric for cleared organoids
title_fullStr FRC-QE: a robust and comparable 3D microscopy image quality metric for cleared organoids
title_full_unstemmed FRC-QE: a robust and comparable 3D microscopy image quality metric for cleared organoids
title_short FRC-QE: a robust and comparable 3D microscopy image quality metric for cleared organoids
title_sort frc-qe: a robust and comparable 3d microscopy image quality metric for cleared organoids
topic Applications Notes
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8479654/
https://www.ncbi.nlm.nih.gov/pubmed/33693580
http://dx.doi.org/10.1093/bioinformatics/btab160
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