brainglobe/brainglobe.github.io

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Created over 1 year ago
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brainglobe/brainglobe.github.io

brainglobe

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brainglobe.info website

brainrender

a python based software for visualization of neuroanatomical and morphological data.

cellfinder

Automated 3D cell detection in very large images

brainglobe-atlasapi

A lightweight python module to interact with atlases for systems neuroscience

brainreg

Automated 3D brain registration with support for multiple species and atlases.

slicereg

A 2D-3D histological brain slice registration application for mouse, rat, zebrafish brains.

brainglobe-heatmap

Rendering anatomical heatmaps with brainrender and matplotlib

brainglobe-segmentation

Segmentation of anatomical structures in a common coordinate space

cellfinder-napari

Efficient cell detection in large images using cellfinder in napari

cellfinder-core

Standalone cellfinder cell detection algorithm

brainrender-napari

A napari plugin to render BrainGlobe atlases and associated data as layers.

morphapi

A lightweight python package to download neuronal morphologies

brainreg-napari

Automated 3D brain registration in napari with support for multiple species and atlases.

bg-brainrender-gui

A GUI built on brainrender: visualise brain regions, neurons and labelled cells.

brainglobe-napari-io

Read and write files from the BrainGlobe neuroanatomy suite

bg-atlasgen

Tools for packaging atlases for use with BrainGlobe

brainrender_paper

Code for recreating the figures in the brainrender paper (Claudi et al. 2020)

brainglobe-utils

Shared general purpose tools for the BrainGlobe project

probeplanner

Helps plan where to put things in brains

brainglobe-meta

(Meta-)package repository for BrainGlobe's Python tools for computational neuroanatomy.

imio

Loading and saving of image data.

napari-brainreg

Visualise brainreg registration output

BrainGlobe

General information, resources and dicussions for the BrainGlobe project.

cellfinder-visualize

bgviewer

Visualisation and exploration of brain atlases

brainrender-docs

brainglobe-workflows

Workflows that utilise BrainGlobe tools to perform data analysis and visualisation.

brainglobe-registration

Registration to BrainGlobe atlases in napari using Elastix

napari-cellfinder

brainglobe-space

Anatomical space conventions made easy.

brainglobe-template-builder

Build unbiased anatomical templates from individual images

bg-gitbook

Mirror of the brainglobe GitBook page

napari-brainreg-standard

Visualise brainreg registration output in standard space

actions

Re-usable GitHub Action scripts

brainglobe-web

brainglobe.info website

brainglobe-stitch

A napari plugin for stitching large tiled 3D imaging datasets

.github

Common templates for BrainGlobe repositories.

course-dec-2023

Materials for the BrainGlobe & napari course at the Sainsbury Wellcome Centre

slides-roadmap-oct-2023

napari-experimental