What is the processing pipeline?
Bitmap data
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Upload bitmap data
The bitmap data analysis starts from a z-stack image, ideally combined with a timelapse in multiple channels.
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Generate 3D reconstruction
The algorithm thresholds the selected channel and creates a 3D reconstruction of the data.
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Segment individual spines
In the case of neuronal models, the 3D reconstruction can be further segmented into dendritic branches and individual spines. The segmentation is aided by generating additional structures, such as dendritic shaft approximation, that provides the division between the center of the dendrite and the protruding spines.
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Follow objects in time
If the data contains a time-lapse, the objects can be followed across multiple time points.
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Calculate parameters
The subsequent analysis can provide information about the structures (shape, surface, volume etc) and how they change in time. Moreover, the relationship between multiple structures, like spines and synapses, can be analyzed, if the information is provided in the raw data. The whole process features a high degree of automation, while simultaneously providing a lot of options for precise manual adjustment of the model.
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Explore the results
Finally, the results can be explored in an inbuilt plotting tool.
