# Mouse brain volume

**URL:** <https://community.brain-map.org/t/mouse-brain-volume/105>\
**Category:** Technical\
**Tags:** brain-explorer\
**Created:** [February 21, 2019, 11:44pm UTC](https://community.brain-map.org/t/mouse-brain-volume/105 "2019-02-21T23:44:36Z")\
**Posts on this page:** 4\
**Page:** 1

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**Author:** ![bendichter](https://yyz1.discourse-cdn.com/flex027/user_avatar/community.brain-map.org/bendichter/32/43_2.png) [@bendichter](https://community.brain-map.org/u/bendichter)\
**Post date:** [February 21, 2019, 11:44pm UTC](https://community.brain-map.org/t/mouse-brain-volume/105/1 "2019-02-21T23:44:36Z")

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Is there a 3D mouse brain volume available? How would I access this data?

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**Author:** ![joshro](https://yyz1.discourse-cdn.com/flex027/user_avatar/community.brain-map.org/joshro/32/85_2.png) [@joshro](https://community.brain-map.org/u/joshro)\
**Post date:** [February 22, 2019, 6:31pm UTC](https://community.brain-map.org/t/mouse-brain-volume/105/2 "2019-02-22T18:31:49Z")

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Yes indeed there is. The question is whether you are looking for a visualization application (BrainExplorer: [http://connectivity.brain-map.org/3d-viewer?v=1](http://connectivity.brain-map.org/3d-viewer?v=1)) or the computational framework (via [AllenSDK](https://allensdk.readthedocs.io/en/latest/reference_space.html)). If the latter, PM or email me and I will get you set up with the basics.

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**Author:** ![dyfbrain](https://yyz1.discourse-cdn.com/flex027/user_avatar/community.brain-map.org/dyfbrain/32/47_2.png) [@dyfbrain](https://community.brain-map.org/u/dyfbrain)\
**Post date:** [February 22, 2019, 10:37pm UTC](https://community.brain-map.org/t/mouse-brain-volume/105/3 "2019-02-22T22:37:05Z")

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If you just want the files and can handle .nrrd, you can find 3D average mouse brain template volume here:

[http://download.alleninstitute.org/informatics-archive/current-release/mouse\_ccf/average\_template/](http://download.alleninstitute.org/informatics-archive/current-release/mouse_ccf/average_template/)

The annotation volume is here:

[http://download.alleninstitute.org/informatics-archive/current-release/mouse\_ccf/annotation/ccf\_2017/](http://download.alleninstitute.org/informatics-archive/current-release/mouse_ccf/annotation/ccf_2017/)

The suffixes (10, 25, 50, 100) are isotropic resolution in microns. The annotation volume contains 32 bit structure IDs which come from the ‘id’ property here:

[http://api.brain-map.org/api/v2/data/Structure/query.json?criteria=[graph\_id$eq1]&num\_rows=1500](http://api.brain-map.org/api/v2/data/Structure/query.json?criteria=%5Bgraph_id%24eq1%5D&num_rows=1500)

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**Author:** ![bendichter](https://yyz1.discourse-cdn.com/flex027/user_avatar/community.brain-map.org/bendichter/32/43_2.png) [@bendichter](https://community.brain-map.org/u/bendichter)\
**Post date:** [February 26, 2019, 2:03am UTC](https://community.brain-map.org/t/mouse-brain-volume/105/4 "2019-02-26T02:03:17Z")

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perfect, thanks!