NOVAS3D
What NOVAS3D does
NOVAS3D (Network of Vessel Analysis in 3D) is a CNN-based pipeline to extarct vascular networks from 3D flourescent microscopy images and track their morphological changes across time.
How to install NOVAS3D
To install the current release run:
pip install novas3d
pip install git+https://github.com/Image-Py/sknw.git@18f18ab94794964a6dd7a76dd8a2c5c00dab6fd1
Get started using NOVAS3D
For a tutorial on using the pipeline please see tutorial.ipynb
Downlaod example data
Ensure git-lfs is installed and enabled or else pickle files present in the example data and model files will not download properly.
git clone https://huggingface.co/datasets/mrozak/novas3d_example_data
git clone https://huggingface.co/mrozak/NOVAS3D_Vessel_and_Neuron_Segmentation
How to cite NOVAS3D
If you use NOVAS3D in your work please cite our paper:
Matthew Rozak James Mester Ahmadreza Attarpour Adrienne Dorr Shruti Patel Margaret Koletar Mary Hill JoAnne McLaurin Maged Goubran Bojana Stefanovic 2024 "A Deep Learning Pipeline for Mapping in situ Network-level Neurovascular Coupling in Multi-photon Fluorescence Microscopy" eLife13:RP95525 https://doi.org/10.7554/eLife.95525.2
For more details, see our docs.
1 maintainer
Metadata
1 maintainer
Release files for novas3d 0.1.10
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| File | Size | Uploaded | Provenance | Actions |
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| File | Interpreter | ABI | Platform | Actions Reset |
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| novas3d-0.1.10-py3-none-any.whl | Python 3 | none | any | Details for novas3d-0.1.10-py3-none-any.whl |
Total release size: 53.0 kB
Release files / novas3d-0.1.10.tar.gz
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