== Digimouse: Creation of Atlas ==
 . [[Digimouse|Overview]] | [[Digimouse_Data_Acquisition|Data Acquisition]] | [[Digimouse_Registration|Registration]] | [[Digimouse_Creation_of_Atlas|Creation of Atlas]]] | [[Digimouse_Simulations|Simulations]] | '''Download'''

----
=== The Coregistered Data with the Atlas ===

 * Matrix size: 380 x 992 x 208
 * Voxel size: 0.1mm x 0.1mm x 0.1mm
 * Size: ~77MB
 * The data is in ANALYZE format which can be viewed using BrainSuite.


'''Download''':
 * [[http://neuroimage.usc.edu/mouse_atlas/pet_data.zip|PET]]
 * [[http://neuroimage.usc.edu/mouse_atlas/ct_data.zip|CT]]
 * [[http://neuroimage.usc.edu/mouse_atlas/cryo_data.zip|Cryosection]]
 * [[http://neuroimage.usc.edu/mouse_atlas/atlas.zip|Atlas]]

'''[[http://neuroimage.usc.edu/Digimouse_jiv.html|Java Viewer]] which shows 3D orthogonal views of registered PET, CT, Cryosections                and Atlas''' (You need to enable Java support in your browser in order to run this applet) 

=== The Raw Data ===
<<BR>>
||<tablewidth="86%"style="border:none"> Download<<BR>> Matrix size: <<BR>> Voxel size: <<BR>> Size: <<BR>> Format ||<style="text-align:center;border:none">'''[[http://neuroimage.usc.edu/mouse_atlas/pet_raw_data.zip|PET]]''' <<BR>>128 x 127 x 128 <<BR>>  0.4 x 0.4 x 0.6 mm^3^ <<BR>> 8MB <<BR>> Float ||<style="text-align:center;border:none">'''[[http://neuroimage.usc.edu/mouse_atlas/ct_raw_data.zip|CT]]'''  <<BR>> 512 x 942 x 512 <<BR>> 0.1 x 0.1 x 0.1 mm^3^ <<BR>> 900MB <<BR>> Float||<style="text-align:center;border:none">'''[[http://neuroimage.usc.edu/mouse_atlas/raw_cryosections.zip|Cryosection]]'''  <<BR>>1704 x 2560 x 418  <<BR>>38.8 x 38.8 x 50um^3^  <<BR>> 600MB <<BR>> jpeg||



=== Tesselated Atlas ===

 * .mat file which can be loaded in MATLAB
 * includes .txt file which has the assignments of the tetrahedrons                  to each organ
 * 306,773 elements and 58,244 nodes (16,164 surface nodes and                  42,080 internal nodes)