svmPSF quickstart manual

For citeable PDF versions of this document, please use the links below.

DOI (concept): https://doi.org/10.5281/zenodo.3901390

DOI (version): https://doi.org/10.5281/zenodo.3966990

Authors: Raphaël Turcotte, Carla C. Schmidt, Nigel J. Emptage, Martin J. Booth

Last modified: 6 yrs ago

The listed authors have participated in the writing of this document. As the content is the culmination of long term work in the Dynamic Optics and Photonics Group, many others have contributed directly or indirectly to this material. We consciously acknowledge all of these contributions, even though it is impractical to list them all here.

Description

This user manual explains how to install and use the svmPSF plugins for Fiji/ImageJ. The svmPSF plugin models a spatially variant PSF into a series of spatially invariant PSFs. Details information about the svmPSF plugin and the algorithm it employs can be found in the associated publication. Combined with a modified Richardson-lucy deconvolution alogorithm, the outputs from svmPSF enable deconvolution of images acquired with a multimode-optical fibre imaging system (link to deconvolution code).

If you use svmPSF for your research or education, please cite our associated publication:

Turcotte R, Sutu E, Schmidt CC, Emptage NJ, Booth MJ. Deconvolution for multimode fiber imaging: Open-source modeling of spatially variant PSF. Biomedical Optics Express 2020;11(8):4759-4771. DOI: 10.1364/BOE.399983 

 

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