Ultraliser
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BlueBrain
Reconstruction of watertight meshes, annotated volumes and center line skeletons of neuroscience spatial structures from non-watertight inputs, segmented masks, skeletons of NGV morphologies and volum...
To satisfy the mesh compression required to store efficient mesh models of the neurons, we should implement binary PLY mesh importer and exporter.
To be able to reconstruct a single neuronal morphology skeleton, we must connect the multi-partition graphs into a single connected graph. If the graph is composed of two partitions, then...
In order to be able to create full mouse brain vasculature datasets, we need a feature to split a single morphology object with multiple partitions into multiple morphology objects, where...
To ensure that all the small edges are covered, it would be better to add a flag to force conservative rasterization.
Hi, Thanks for the amazing work. I am trying to build mesh out of vessel skeletons. I have been reading the wiki page to prepare the input from numpy arrays,...
To provide a clean output, clean the soma mesh before exporting it.
To standardize the extracted skeleton, make sure that you translate the entire skeleton to the origin, based on the center of the segmented soma.
Incrementally, implement a neuron SWC exporter from the skeletonized dataset. The exporter should: 1. Initially, export all the __valid__ branches as dendrites, even including the spines. 2. Categorize the branches...
If the resolution given to the skeletonizer is relatively low with respect to the smallest sample in the neuron, we should try to find a relative metric with which we...
To help segmenting the neuronal skeletons into axons, dendrites and spines, we should provide complete statistical analysis data and apply those statistics to the skeletonization algorithm at the last stage.