43 projects
brainglobe
Python-based tools for computational neuroanatomy.
brainrender
Visualisation and exploration of brain atlases and other anatomical data
movement
Analysis of body movement
brainglobe-utils
Shared general purpose tools for the BrainGlobe project
morphapi
A lightweight python package to download neuronal morphologies
brainglobe-segmentation
Manual segmentation of 3D brain structures in a common anatomical space
cellfinder
Automated 3D cell detection and registration of whole-brain images
brainreg-napari
Multi-atlas whole-brain microscopy registration
brainreg
Automated multi-atlas whole-brain microscopy registration
brainreg-segment
Manual segmentation of 3D brain structures in a common anatomical space
brainglobe-napari-io
Read and write files from the BrainGlobe neuroanatomy suite
datashuttle
Organise and transfer scientific projects in BIDS format
brainrender-napari
A napari plugin to render BrainGlobe atlases and associated data as layers.
brainglobe-template-builder
Build unbiased anatomical templates from individual images
NeuralPlayground
The standardised environment for the hippocampus and entorhinal cortex models
cellfinder-napari
Efficient cell detection in large images
imio
Loading and saving of image data.
cellfinder-core
Automated 3D cell detection in large microscopy images
WAZP
Wasp Animal-tracking Zoo project with Pose estimation
cellshape-cluster
3D shape analysis using deep learning
cellshape-cloud
3D cell shape analysis using geometric deep learning on point clouds
cellfinder-visualize
Cellfinder output visualization
fancylog
Fancier logging in Python
python-packaging-at
Example of how to package Python projects
cellshape-voxel
3D shape analysis using deep learning
bg-atlasapi
A lightweight python module to interact with atlases for systems neuroscience
build-test-at
A simple Python package
slurmio
Python tools to interface with slurm
slidebook-python
Open slidebook .sldy files in Python
synchro
Customisable file transfers using rsync
cordmap
imlib
General data processing functions
napari-brainreg-standard
Visualise brainreg registration output in standard space
brainio
Loading and saving of brain imaging data.
bgviewer
Visualisation and exploration of brain atlases
amap
Automated mouse atlas propagation
brainatlas-api
A lightweight python module to interact with atlases for systems neuroscience
spikey
Electrophysiology analysis
slicereg
Registration of 2D sections to a 3D volume
brainrender-test
Python scripts to use Allen Brain Map data for analysis and rendering
surfcut
Cutting confocal stacks at various depths relative to surface signal
cellfinder-analyst
Group level analysis of cellfinder results.
micrometa
Reading of microscopy metadata
