Flood-Filling Networks for instance segmentation in 3d volumes.
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Dec 21, 2024 - Python
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connectomics
Here are 92 public repositories matching this topic...
Euclidean distance & signed distance transform for multi-label 3D anisotropic images using marching parabolas.
python algorithm cpp numpy parallel neuroscience signed-distance-field connectomics signed-distance-functions distance-transform 3d 2d biomedical-image-processing 1d anisotropy euclidean-distance anisotropic euclidean-distance-transform marching-parabolas
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Jul 17, 2024 - C
Extraction of 3D skeletons from meshes.
python skeleton mesh neurons volumes connectomics meshes 3d skeletonization teasar skeleton-extraction skeletonize
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Aug 28, 2024 - Python
Distributed, Versioned, Image-oriented Dataservice
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Dec 4, 2024 - Go
Collaborative Annotation Toolkit for Massive Amounts of Image Data
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Dec 21, 2024 - JavaScript
Graph theory analysis of brain MRI data
r statistics neuroscience mri graph-theory neuroimaging complex-networks fmri network-analysis connectomics brain-imaging connectome brain-connectivity tractography
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Feb 20, 2024 - R
PyTorch Connectomics: segmentation toolbox for EM connectomics
computer-vision deep-learning neuroscience pytorch segmentation connectomics microscopy biomedical-image-processing
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Dec 16, 2024 - Python
Skeletonize densely labeled 3D image segmentations with TEASAR. (Medial Axis Transform)
python voxel python3 image-segmentation python2 centerline connectomics skeletons biomedical-image-processing skeletonization volumetric-data computer-vision-algorithms cross-section teasar medial-axis-transform centerline-extraction cross-section-area
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Aug 2, 2024 - C
Read and write Neuroglancer datasets programmatically.
python cloud big-data serverless numpy matrix s3 gcs mesh tensor electron-microscopy connectomics microscopy skeletons biomedical-image-processing volumetric-data microscopy-images neuroglancer large-image chunked-image
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Dec 19, 2024 - Python
The ENIGMA Toolbox is an open-source repository for accessing 100 ENIGMA statistical maps, visualizing cortical and subcortical surface data, and relating neuroimaging findings to micro- and macroscale brain organization. 🤠
visualization open-source awesome multisite analysis mri enigma neuroimaging connectomics workflows multiscale straight-fire life-changing-magic
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Apr 11, 2024 - Python
Visualize, share and annotate your large 3D images online
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Dec 23, 2024 - TypeScript
A performant, powerful query framework to search for network motifs
python neo4j graph networkx graph-database connectomics query-language connectome motif-discovery graph-matching motifs subgraph-isomorphism bossdb vf2 aplbrain dotmotif
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Aug 21, 2024 - Python
KNOSSOS is a software tool for the visualization and annotation of 3D image data and was developed for the rapid reconstruction of neural morphology and connectivity.
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Oct 29, 2024 - C
Open Scripts and pipelines from the Multimodal Imaging and Connectome Analysis Lab at the Montreal Neurological Institute
machine-learning neuroscience neuroimaging networks gradients connectomics histology multimodal multi-scale
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Nov 27, 2024 - Jupyter Notebook
NeuroAnatomy Toolbox: An R package for the (3D) visualisation and analysis of biological image data, especially tracings of single neurons.
cran r visualisation neuroscience image-analysis neuron connectomics 3d neuroanatomy neuroanatomy-toolbox neuron-morphology
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Oct 15, 2024 - R
Marching Cubes & Mesh Simplification on multi-label 3D images.
python meshing marching-cubes-algorithm mesh-generation marching-cubes connectomics biomedical-image-processing mesh-processing volumetric-data mesh-simplification
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Nov 26, 2024 - C
Performant, pure-Python subgraph isomorphism and monomorphism search (aka "motif search")
algorithm network graphs network-analysis connectomics ullman subgraph-isomorphism network-biology bossdb vf2 grand-graphs aplbrain grand-iso dotmotif
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Aug 16, 2024 - Python
Scalable Optical Flow-based Image Montaging and Alignment
python3 electron-microscopy connectomics microscopy 3d 2d biomedical-image-processing 4d jax alignment-algorithm stitching-algorithm
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Dec 12, 2024 - Jupyter Notebook
Brainconn - an R package for visualising brain connectivity data in 2D and interactive 3D
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Jan 16, 2024 - R
Scalable Neuroglancer compatible Downsampling, Meshing, Skeletonizing, Contrast Normalization, Transfers and more.
visualization python docker kubernetes cloud python3 meshing connectomics ccl multi-resolution skeletonization volumetric-data downsample neuroglancer downsampling connected-components-labeling
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Dec 18, 2024 - Python
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