cellfinder

Jul 12, 2020 1 min read 👏

cellfinder is software from the Margrie Lab at the Sainsbury Wellcome Centre for automated 3D cell detection and registration of whole-brain images (e.g. serial two-photon or lightsheet imaging).

It’s a work in progress, but cellfinder can:

  • Detect labelled cells in 3D in whole-brain images (many hundreds of GB)
  • Register the image to an atlas (such as the Allen Mouse Brain Atlas)
  • Segment the brain based on the reference atlas
  • Calculate the volume of each brain area, and the number of labelled cells within it
  • Transform everything into standard space for analysis and visualisation

Project Author(s)

Adam Tyson

https://github.com/brainglobe/cellfinder

This post was automatically generated by Adam Tyson

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