BrainGlobe

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46 repositories

brainglobe-stitch
Public
A napari plugin for stitching large tiled 3D imaging datasets
Python
•
BSD 3-Clause "New" or "Revised" License
•0•7•2•1•Updated Jan 10, 2025Jan 10, 2025
brainglobe-atlasapi
Public
A Python interface to access neuroanatomical atlases
python visualisation neuroscience registration microscopy brain atlases
Python
•
BSD 3-Clause "New" or "Revised" License
•35•128•107•8•Updated Jan 10, 2025Jan 10, 2025
brainglobe-registration
Public
Registration to BrainGlobe atlases in napari using Elastix
Python
•
BSD 3-Clause "New" or "Revised" License
•2•16•8•0•Updated Jan 10, 2025Jan 10, 2025
brainglobe-template-builder
Public
Build unbiased anatomical templates from individual images
Python
•
BSD 3-Clause "New" or "Revised" License
•0•8•12•2•Updated Jan 7, 2025Jan 7, 2025
cellfinder
Public
Automated 3D cell detection in very large images
python deep-learning neuroscience image-analysis microscopy imaging neuroanatomy cell-detection
Python
•
BSD 3-Clause "New" or "Revised" License
•39•181•70•0•Updated Jan 7, 2025Jan 7, 2025
staged-recipes
Public
A place to submit conda recipes before they become fully fledged conda-forge feedstocks
Python
•
BSD 3-Clause "New" or "Revised" License
•5k•1•0•0•Updated Jan 7, 2025Jan 7, 2025
brainglobe-heatmap
Public
Rendering anatomical heatmaps with brainrender and matplotlib
visualization atlas neuroanatomy brainglobe
Python
•
MIT License
•10•34•5•0•Updated Jan 7, 2025Jan 7, 2025
brainrender-napari
Public
A napari plugin to render BrainGlobe atlases and associated data as layers.
Python
•
BSD 3-Clause "New" or "Revised" License
•2•20•37•0•Updated Jan 7, 2025Jan 7, 2025
morphapi
Public
A Python package to download neuronal morphologies
Python
•
MIT License
•6•17•3•0•Updated Jan 7, 2025Jan 7, 2025
brainrender
Public
A Python package to visualise neuroanatomical data in atlas space
visualization python neuroscience anatomy
Python
•
BSD 3-Clause "New" or "Revised" License
•81•554•10•0•Updated Jan 7, 2025Jan 7, 2025
brainglobe-utils
Public
Shared general purpose tools for the BrainGlobe project
Python
•
MIT License
•1•11•7•0•Updated Jan 7, 2025Jan 7, 2025
brainglobe-meta
Public
(Meta-)package repository for BrainGlobe's Python tools for computational neuroanatomy.
Python
•
BSD 3-Clause "New" or "Revised" License
•0•10•6•0•Updated Jan 7, 2025Jan 7, 2025
brainreg
Public
Automated 3D brain registration with support for multiple species and atlases.
neuroscience registration microscopy brain neuroanatomy atlases
Python
•
BSD 3-Clause "New" or "Revised" License
•29•128•17•0•Updated Jan 7, 2025Jan 7, 2025
brainglobe-space
Public
Anatomical space conventions made easy.
Python
•
BSD 3-Clause "New" or "Revised" License
•4•9•2•0•Updated Jan 7, 2025Jan 7, 2025
brainglobe-napari-io
Public
Read and write files from the BrainGlobe neuroanatomy suite
napari-plugin
Python
•
BSD 3-Clause "New" or "Revised" License
•3•13•2•0•Updated Jan 7, 2025Jan 7, 2025
brainglobe-segmentation
Public
Segmentation of anatomical structures in a common coordinate space
neuroscience segmentation neuroanatomy napari brainreg cellfinder
Python
•
BSD 3-Clause "New" or "Revised" License
•10•30•12•0•Updated Jan 7, 2025Jan 7, 2025
brainglobe.github.io
Public
brainglobe.info website
brainglobe
Python
•
Creative Commons Attribution 4.0 International
•9•10•30•1•Updated Dec 16, 2024Dec 16, 2024
brainglobe-workflows
Public
Workflows that utilise BrainGlobe tools to perform data analysis and visualisation.
Python
•
BSD 3-Clause "New" or "Revised" License
•2•9•24•0•Updated Dec 16, 2024Dec 16, 2024
brainglobe-ccf-translator
Public
A tool for translating between common coordinate frameworks using deformation matrices.
Python
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MIT License
•0•4•10•0•Updated Nov 18, 2024Nov 18, 2024
slides-neuropixels-aligning-spikes-histology
Public
Slides for the UCL Neuropixels course - "Aligning spikes to histology with BrainGlobe"
JavaScript
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BSD 3-Clause "New" or "Revised" License
•0•1•0•0•Updated Oct 15, 2024Oct 15, 2024
.github
Public
Common templates for BrainGlobe repositories.
0•6•0•0•Updated Oct 8, 2024Oct 8, 2024
course-whole-brain-microscopy-analysis
Public
Materials for the Whole brain microscopy analysis with BrainGlobe and napari course
JavaScript
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BSD 3-Clause "New" or "Revised" License
•2•1•0•0•Updated Oct 7, 2024Oct 7, 2024
brainrender-docs
Public archive
docs neuroscience anatomy brainrender
CSS
•4•9•0•0•Updated Sep 16, 2024Sep 16, 2024
napari-experimental
Public
Python
•
BSD 3-Clause "New" or "Revised" License
•1•3•4•0•Updated Jul 18, 2024Jul 18, 2024
micrometa
Public archive
Parsing of whole-brain microscopy metadata
Python
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MIT License
•0•2•0•0•Updated Jul 4, 2024Jul 4, 2024
stack-to-chunk
Public
Convert stacks of images to chunked datasets
Python
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BSD 3-Clause "New" or "Revised" License
•1•2•0•0•Updated May 28, 2024May 28, 2024
bg-atlasgen
Public archive
Tools for packaging atlases for use with BrainGlobe
python neuroscience registration brain atlas
Python
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BSD 3-Clause "New" or "Revised" License
•24•12•0•0•Updated Feb 21, 2024Feb 21, 2024
imio
Public archive
Loading and saving of image data.
tiff image-processing loading saving nifti tiff-series
Python
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MIT License
•3•10•0•0•Updated Feb 9, 2024Feb 9, 2024
brainreg-napari
Public archive
Automated 3D brain registration in napari with support for multiple species and atlases.
neuroscience registration microscopy brain anatomy atlases napari
Python
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MIT License
•6•15•0•0•Updated Jan 5, 2024Jan 5, 2024
cellfinder-napari
Public archive
Efficient cell detection in large images using cellfinder in napari
tensorflow keras resnet object-detection cell-detection napari-plugin napari cellfinder
Python
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BSD 3-Clause "New" or "Revised" License
•6•23•0•0•Updated Jan 5, 2024Jan 5, 2024