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Multi-Scale Cell Detector for Large Samples

Description & purpose of resource

MassiveMultiScaleCellDetector (MMSCD) is a tool adapted to efficiently extract anatomical features from large brain images on the order of Terabytes. The MMSCD enables parallel computations to efficiently extract, by now, the location, orientation and size of labeled cells from mouse whole brain images (tested in CLARITY + LSFM).

mesoscopic cell detection whole brain

 

Currently, the tools is in beta version (the code requires to be revised, updated and cleaned for readability and usability).

Spatial scales
cellular
tissue
organ
This resource is currently
under early-stage development
Has this resource been validated?
Yes
How has the resource been validated?

This tool has been tested with whole brain data from mice.

DOI link to publication describing this resource

https://doi.org/10.5281/zenodo.8316074

Link to resource
https://github.com/MorphoNeuralNetworks/MassiveMultiScaleCellDetector
Keywords
BRAIN TMM, cell detection, cell position, cell orientation, cell size, large samples, terabytes, mouse whole brain
Table sorting checkbox
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Model type
geometrical
Data type
fluorescence
imaging