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ClearAnatomics / ClearMap

ClearMap 2 with WobblyStitcher, TubeMap and CellMap
https://clearanatomics.github.io/ClearMapDocumentation/
GNU General Public License v3.0
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Coronal atlas #96

Open Hesham3esa opened 3 years ago

Hesham3esa commented 3 years ago

Hello,

Is there any coronal atlas out there that i can use please?

Thanks

vv-21 commented 2 years ago

Hi @Hesham3esa,

This may not quite answer your question, but you could try to match the orientation of the atlas to your data within ClearMap. In the 'initialise alignment' step you can set which part of the atlas your data corresponds to by specifying the orientation and slice numbers. E.g. to change the orientation:

(1, 2, 3) | The scan has the same orientation as the atlas reference (-1, 2, 3) | The x axis is inverted compared to the atlas (1, -2, 3) | The y axis is inverted compared to the atlas (2, 1, 3) | Exchanges the x and y axis (3, 2, -1) | Exchanges the z and x axis and inverts the new z-axis.

Hope this is helpful.