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      microCT/README.md

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microCT/README.md

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-#### See https://danionella.github.io/veith_et_al_2024/ for online viewer.  
-#### See http://n2t.net/ark:/87602/m4/623999 for MorphoSource entry.
+### Micro CT data
+PMA (phosphomolybdic acid)-stained, adult, male _Danionella cerebrum_.
+##### See https://danionella.github.io/veith_et_al_2024/ for online viewer.  
+##### See http://n2t.net/ark:/87602/m4/623999 for MorphoSource entry.
+###### Raw data
+`Danionella_cerebrum_PMA_16bit_binned_1p297_oriented_front_1965x1926x3328.raw`  
+When opening file in ImageJ Fiji, choose `16-bit Unsigned` and `Little-endian byte order`. Opening as virtual stack is recommended. The voxel size is 1.29702 µm.
+
+###### Segmentation (DragonFly)
+`Danionella_cerebrum_PMA_16bit_binned_1p297_oriented_front_1965x1926x3328_cropped_1224x1224x1645_segmentation.ORSSession`  
+Dragonfly (https://www.theobjects.com/dragonfly) project file, which contains raw data cropped around the inner ear (1224x1224x1645, anchor at 369,246,412), handlabelled planes, interpolated binary ROIs (interpolated by biomedisa, https://biomedisa.info/), and meshgrids derived from these binary ROIs.
+
+###### Meshgrids (Blender)
+`Danionella_cerebrum_PMA_16bit_binned_1p297_oriented_front_1965x1926x3328_cropped_1224x1224x1645_meshgrid.blend`  
+This Blender project file contains downsampled meshgrids of segmented inner ear structures and an animation.