Microscopy Nodes helps load microscopy data and visualize it for easy, accurate, and intuitive data visualization of microscopy!
Currently, Microscopy Nodes supports the import of up to 5D tif files (xyz, time and channels), with segmentation channels loaded as meshes instead of volumes. Microscopy Nodes allows the user to set pixel size in µm, and provides auto-generated editable scale boxes to annotate volume data.
In short, Microscopy Nodes supports:
Microscopy Nodes takes arbitrary sizes of image arrays, as long as this fits within RAM and manages to resave into the blender-native .vdb file format.
Microscopy Nodes used to be known as 'Tif2Blender'. Tutorials for Microscopy Nodes can be found on https://www.youtube.com/@oanegros
The Microscopy Nodes panel can be found in Scene Properties:
Here we have multiple parameters that can be set, most notably:
.tif file
Cache directory
The addon should set the pixel sizes and axis order automatically for imagej-tif files, but you can always edit them in the panel.
For electron microscopy data:
Surfaces
(does not load an isosurface mesh, which may take too much RAM) and Emission
(takes the volumetric data as absorbing light rather than emitting light).label masks:
label masks
interface allows you to note which channels contain integer-identity label masks, and these will be loaded as meshes. Note that for binary masks, the Surfaces
may be more effective.hyperparameters:
Force remaking vdb files
Preset environment
Remove reliance on Blender initial names:
This extension requests the following permission:
Importing data files from disk, writing to cache folder