BrainGlobe (@brainglobe)
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Top repositories

1

brainrender

a python based software for visualization of neuroanatomical and morphological data.
Python
540
star
2

cellfinder

Automated 3D cell detection in very large images
Python
179
star
3

brainglobe-atlasapi

A lightweight python module to interact with atlases for systems neuroscience
Python
125
star
4

brainreg

Automated 3D brain registration with support for multiple species and atlases.
Python
121
star
5

slicereg

A 2D-3D histological brain slice registration application for mouse, rat, zebrafish brains.
Python
37
star
6

brainglobe-heatmap

Rendering anatomical heatmaps with brainrender and matplotlib
Python
34
star
7

brainglobe-segmentation

Segmentation of anatomical structures in a common coordinate space
Python
28
star
8

cellfinder-napari

Efficient cell detection in large images using cellfinder in napari
Python
24
star
9

cellfinder-core

Standalone cellfinder cell detection algorithm
Python
19
star
10

brainrender-napari

A napari plugin to render BrainGlobe atlases and associated data as layers.
Python
19
star
11

morphapi

A lightweight python package to download neuronal morphologies
Python
17
star
12

brainreg-napari

Automated 3D brain registration in napari with support for multiple species and atlases.
Python
14
star
13

brainglobe-napari-io

Read and write files from the BrainGlobe neuroanatomy suite
Python
13
star
14

brainglobe-registration

Registration to BrainGlobe atlases in napari using Elastix
Python
13
star
15

bg-brainrender-gui

A GUI built on brainrender: visualise brain regions, neurons and labelled cells.
Python
12
star
16

bg-atlasgen

Tools for packaging atlases for use with BrainGlobe
Python
12
star
17

brainglobe-utils

Shared general purpose tools for the BrainGlobe project
Python
11
star
18

brainrender_paper

Code for recreating the figures in the brainrender paper (Claudi et al. 2020)
Python
11
star
19

probeplanner

Helps plan where to put things in brains
Python
10
star
20

BrainGlobe

General information, resources and dicussions for the BrainGlobe project.
10
star
21

brainglobe-meta

(Meta-)package repository for BrainGlobe's Python tools for computational neuroanatomy.
Python
10
star
22

brainglobe.github.io

brainglobe.info website
Python
10
star
23

imio

Loading and saving of image data.
Python
10
star
24

napari-brainreg

Visualise brainreg registration output
Python
10
star
25

cellfinder-visualize

Python
9
star
26

bgviewer

Visualisation and exploration of brain atlases
Python
9
star
27

brainrender-docs

CSS
9
star
28

brainglobe-workflows

Workflows that utilise BrainGlobe tools to perform data analysis and visualisation.
Python
9
star
29

brainglobe-template-builder

Build unbiased anatomical templates from individual images
Python
8
star
30

napari-cellfinder

Python
8
star
31

brainglobe-space

Anatomical space conventions made easy.
Python
8
star
32

bg-gitbook

Mirror of the brainglobe GitBook page
7
star
33

napari-brainreg-standard

Visualise brainreg registration output in standard space
Python
7
star
34

actions

Re-usable GitHub Action scripts
6
star
35

brainglobe-web

brainglobe.info website
HTML
6
star
36

brainglobe-stitch

A napari plugin for stitching large tiled 3D imaging datasets
Python
6
star
37

.github

Common templates for BrainGlobe repositories.
6
star
38

course-dec-2023

Materials for the BrainGlobe & napari course at the Sainsbury Wellcome Centre
JavaScript
6
star
39

slides-roadmap-oct-2023

SCSS
4
star
40

napari-experimental

Python
2
star
41

micrometa

Parsing of whole-brain microscopy metadata
Python
1
star