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moco: Fast Motion Correction for Calcium Imaging

Motion correction is the first step in a pipeline of algorithms to analyze calcium imaging videos and extract biologically relevant information, for example the network structure of the neurons therein. Fast motion correction is especially critical for closed-loop activity triggered stimulation expe...

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Detalles Bibliográficos
Autores principales: Dubbs, Alexander, Guevara, James, Yuste, Rafael
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Frontiers Media S.A. 2016
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4754735/
https://www.ncbi.nlm.nih.gov/pubmed/26909035
http://dx.doi.org/10.3389/fninf.2016.00006
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author Dubbs, Alexander
Guevara, James
Yuste, Rafael
author_facet Dubbs, Alexander
Guevara, James
Yuste, Rafael
author_sort Dubbs, Alexander
collection PubMed
description Motion correction is the first step in a pipeline of algorithms to analyze calcium imaging videos and extract biologically relevant information, for example the network structure of the neurons therein. Fast motion correction is especially critical for closed-loop activity triggered stimulation experiments, where accurate detection and targeting of specific cells in necessary. We introduce a novel motion-correction algorithm which uses a Fourier-transform approach, and a combination of judicious downsampling and the accelerated computation of many L(2) norms using dynamic programming and two-dimensional, fft-accelerated convolutions, to enhance its efficiency. Its accuracy is comparable to that of established community-used algorithms, and it is more stable to large translational motions. It is programmed in Java and is compatible with ImageJ.
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spelling pubmed-47547352016-02-23 moco: Fast Motion Correction for Calcium Imaging Dubbs, Alexander Guevara, James Yuste, Rafael Front Neuroinform Neuroscience Motion correction is the first step in a pipeline of algorithms to analyze calcium imaging videos and extract biologically relevant information, for example the network structure of the neurons therein. Fast motion correction is especially critical for closed-loop activity triggered stimulation experiments, where accurate detection and targeting of specific cells in necessary. We introduce a novel motion-correction algorithm which uses a Fourier-transform approach, and a combination of judicious downsampling and the accelerated computation of many L(2) norms using dynamic programming and two-dimensional, fft-accelerated convolutions, to enhance its efficiency. Its accuracy is comparable to that of established community-used algorithms, and it is more stable to large translational motions. It is programmed in Java and is compatible with ImageJ. Frontiers Media S.A. 2016-02-16 /pmc/articles/PMC4754735/ /pubmed/26909035 http://dx.doi.org/10.3389/fninf.2016.00006 Text en Copyright © 2016 Dubbs, Guevara and Yuste. http://creativecommons.org/licenses/by/4.0/ This is an open-access article distributed under the terms of the Creative Commons Attribution License (CC BY). The use, distribution or reproduction in other forums is permitted, provided the original author(s) or licensor are credited and that the original publication in this journal is cited, in accordance with accepted academic practice. No use, distribution or reproduction is permitted which does not comply with these terms.
spellingShingle Neuroscience
Dubbs, Alexander
Guevara, James
Yuste, Rafael
moco: Fast Motion Correction for Calcium Imaging
title moco: Fast Motion Correction for Calcium Imaging
title_full moco: Fast Motion Correction for Calcium Imaging
title_fullStr moco: Fast Motion Correction for Calcium Imaging
title_full_unstemmed moco: Fast Motion Correction for Calcium Imaging
title_short moco: Fast Motion Correction for Calcium Imaging
title_sort moco: fast motion correction for calcium imaging
topic Neuroscience
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4754735/
https://www.ncbi.nlm.nih.gov/pubmed/26909035
http://dx.doi.org/10.3389/fninf.2016.00006
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