BIOMEDICAL IMAGING GROUP (BIG)
Laboratoire d'imagerie biomédicale (LIB)

3D Deconvolution

F. Soulez, D. Sage

Tenth Edition of the CNRS Thematic School, Functional Microscopy for Biology (MiFoBio'23), Presqu'île de Giens, French Republic, November 9-17, 2023, pp. 82–83.

The purpose of the deconvolution is to digitally compensate for the blur introduced by the microscope. In 3D microscopy, deconvolution improves images on several points:

  • by increasing the resolution (along the axial direction in particular),
  • by reducing noise (especially at low flux),
  • by improving the contrast.
This makes deconvolution a valuable tool for improving post-processing such as segmentation.

This workshop proposes to demystify the deconvolution methods and offers a demonstration of open source deconvolution software.

It will be in 4 parts:

  • a brief theoretical description,
  • the important points for a successful deconvolution,
  • comparison of classical methods with the DeconvolutionLab2 ImageJ plugin on simulated and real epifluorescence and confocal data.
  • in case the PSF is not known we will guide users in the use of EpiDEMIC, an Icy blind deconvolution plugin for epifluorescence.

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