ChristophKirst/ClearMap2: ClearMap 2.0

This is the first public release of ClearMap 2 as described in Kirst et al. Cell 2020.

ClearMap is a toolbox for the analysis and registration of volumetric data from cleared tissues.

ClearMap comes with a full documentation and a large range of high performance processing and visualization tools including:

Wobbly-Stitcher <a href="https://christophkirst.github.io/ClearMap2Documentation/html/TubeMap.html#Stitching"> <img src="https://christophkirst.github.io/ClearMap2Documentation/images/WobblyStitcher.jpg" alt="WobblyStitcher" width="150" align="right" vspace = "5"/></a>

Stitch TB data sets non-rigidly.

TubeMap <a href="https://christophkirst.github.io/ClearMap2Documentation/html/TubeMap.html"> <img src="https://christophkirst.github.io/ClearMap2Documentation/images/TubeMap_graph_raw_movie.gif" alt="WobblyStitcher" width="150" align="right" vspace = "5"/></a>

Extract vasculature and other tubular networks from TB data.

CellMap <a href="https://christophkirst.github.io/ClearMap2Documentation/html/CellMap.html"> <img src="https://christophkirst.github.io/ClearMap2Documentation/images/CellMap_raw_bw.gif" alt="WobblyStitcher" width="150" align="right" vspace = "5"/></a>

Extract neuronal activity marker and cell shapes.

Authors

ClearMap was originally designed and developed by Christoph Kirst.

Scripts and specific applications were developed by Nicolas Renier and Christoph Kirst.

The deep vessel filling network was designed and created by Sophie Skriabine and Christoph Kirst.

The documentation was written by Christoph Kirst. and Nicolas Renier.

Contributions are always very welcome.

License

This project is licensed under the GNU General Public License v3.0.

For other options contact the author Christoph Kirst (christoph.kirst.ck@gmail.com).

Copyright © 2020 by Christoph Kirst