# How to recontruct 2D ISH slices into 3D voxel data

**URL:** <https://community.brain-map.org/t/how-to-recontruct-2d-ish-slices-into-3d-voxel-data/3171>\
**Category:** General\
**Created:** [March 18, 2024, 5:27am UTC](https://community.brain-map.org/t/how-to-recontruct-2d-ish-slices-into-3d-voxel-data/3171 "2024-03-18T05:27:57Z")\
**Posts on this page:** 2\
**Page:** 1

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**Author:** ![zz1358](https://avatars.discourse-cdn.com/v4/letter/z/bbce88/32.png) [@zz1358](https://community.brain-map.org/u/zz1358)\
**Post date:** [March 18, 2024, 5:27am UTC](https://community.brain-map.org/t/how-to-recontruct-2d-ish-slices-into-3d-voxel-data/3171/1 "2024-03-18T05:27:57Z")

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hello,

I am currently trying to segment using 3D voxel ISH data from the whole mouse brain. As I know, 3D voxel data is available at 200 micron resolution.  
But I want 3D voxel ISH data at higher resolution. I am wandering if there are some software or codes that can recontruct 2D ISH slices into 3D voxel data.

Thank you very much in advance!

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**Author:** ![Susan.Sunkin](https://avatars.discourse-cdn.com/v4/letter/s/6a8cbe/32.png) [@Susan.Sunkin](https://community.brain-map.org/u/Susan.Sunkin)\
**Post date:** [March 25, 2024, 8:13pm UTC](https://community.brain-map.org/t/how-to-recontruct-2d-ish-slices-into-3d-voxel-data/3171/2 "2024-03-25T20:13:34Z")

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Hi,

This publication might be helpful in addressing your question: [https://www.researchgate.net/publication/221303464\_3-D\_Mouse\_Brain\_Model\_Reconstruction\_from\_a\_Sequence\_of\_2-D\_Slices\_in\_Application\_to\_Allen\_Brain\_Atlas](https://www.researchgate.net/publication/221303464_3-D_Mouse_Brain_Model_Reconstruction_from_a_Sequence_of_2-D_Slices_in_Application_to_Allen_Brain_Atlas)

Thank you,

Susan