GitHub topics: neuroanatomy

Repositories

brainglobe/brainglobe-heatmap

Rendering anatomical heatmaps with brainrender and matplotlib

Language: Python - Size: 1.71 MB - Last synced at: 1 day ago - Pushed at: 1 day ago - Stars: 44 - Forks: 15

DIPY is the paragon 3D/4D+ medical imaging library in Python. Contains generic methods for spatial normalization, signal processing, machine learning, statistical analysis and visualization of medical images. Additionally, it contains specialized methods for computational anatomy including diffusion, perfusion and structural imaging.

Language: Python - Size: 72.6 MB - Last synced at: 7 days ago - Pushed at: 7 days ago - Stars: 781 - Forks: 448

brainglobe/brainreg

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

Language: Python - Size: 821 MB - Last synced at: 8 days ago - Pushed at: 30 days ago - Stars: 136 - Forks: 32

natverse/nat.nblast

R package implementing the NBLAST neuron search algorithm, as an add-on for the NeuroAnatomy Toolbox (nat) R package.

Language: R - Size: 6.55 MB - Last synced at: 17 days ago - Pushed at: 17 days ago - Stars: 16 - Forks: 6

natverse/nat.templatebrains

Support for 3D template brains used as targets for image registration

Language: R - Size: 713 KB - Last synced at: 17 days ago - Pushed at: 17 days ago - Stars: 3 - Forks: 0

SWC-Advanced-Microscopy/BakingTray

Serial-section automated anatomy extension for ScanImage

Language: MATLAB - Size: 2.34 MB - Last synced at: 18 days ago - Pushed at: 18 days ago - Stars: 15 - Forks: 5

navis-org/navis

Python library for analysis of neuroanatomical data.

Language: Python - Size: 297 MB - Last synced at: 29 days ago - Pushed at: 29 days ago - Stars: 104 - Forks: 34

natverse/nat

NeuroAnatomy Toolbox: An R package for the (3D) visualisation and analysis of biological image data, especially tracings of single neurons.

Language: R - Size: 61.2 MB - Last synced at: 26 days ago - Pushed at: 26 days ago - Stars: 69 - Forks: 27

brainglobe/brainglobe-segmentation

Segmentation of anatomical structures in a common coordinate space

Language: Python - Size: 11.1 MB - Last synced at: 12 days ago - Pushed at: 30 days ago - Stars: 33 - Forks: 12

brainglobe/cellfinder

Automated 3D cell detection in very large images

Language: Python - Size: 167 MB - Last synced at: 30 days ago - Pushed at: 30 days ago - Stars: 216 - Forks: 63

yzx9/swcgeom

Neuron geometry library for swc format.

Language: Python - Size: 4.12 MB - Last synced at: 13 days ago - Pushed at: about 1 month ago - Stars: 8 - Forks: 3

obophenotype/brain_data_standards_ontologies

A repository for co-ordinating work on ontologies for the Brain Data Standards Project

Language: Python - Size: 300 MB - Last synced at: 2 months ago - Pushed at: 2 months ago - Stars: 11 - Forks: 3

ai-med/quickNAT_pytorch

PyTorch Implementation of QuickNAT and Bayesian QuickNAT, a fast brain MRI segmentation framework with segmentation Quality control using structure-wise uncertainty

Language: Python - Size: 342 MB - Last synced at: about 2 months ago - Pushed at: over 4 years ago - Stars: 104 - Forks: 37

vadori/cytoark

Processing of histological data for cytoarchitecture analyses.

Language: Jupyter Notebook - Size: 716 MB - Last synced at: 7 months ago - Pushed at: 7 months ago - Stars: 7 - Forks: 2

katjaq/katjaq.github.io

website for my projects

Language: CSS - Size: 10.4 MB - Last synced at: 8 months ago - Pushed at: 8 months ago - Stars: 0 - Forks: 0

dicemt/DTI-NODDI

:brain: DTI-NODDI: Create NODDI maps from DTI (either "FA and MD" or "L1, L2, and L3")

Language: Python - Size: 23.4 KB - Last synced at: 9 months ago - Pushed at: 9 months ago - Stars: 6 - Forks: 6

afids/afids-macaca Fork of greydongilmore/AFIDS_macaca

anatomical fiducials protocol adapted for macaques

Language: Jupyter Notebook - Size: 143 MB - Last synced at: 12 months ago - Pushed at: 12 months ago - Stars: 6 - Forks: 3

HealthX-Lab/SONIA

Customizable system for displaying and inspecting brain structures, connections, and subsystems in VR

Language: C# - Size: 253 MB - Last synced at: 12 months ago - Pushed at: 12 months ago - Stars: 6 - Forks: 0

flyconnectome/fancr

Support Acccess to the Female Adult Nerve Cord (FANC) Dataset

Language: R - Size: 3.78 MB - Last synced at: about 1 year ago - Pushed at: about 1 year ago - Stars: 2 - Forks: 1

sudarshana/neuroscience

Size: 65.4 KB - Last synced at: about 1 year ago - Pushed at: about 1 year ago - Stars: 0 - Forks: 0

zrmor/neuro_basics

Material I found most helpful learning neuro-related topics.

Size: 104 KB - Last synced at: 10 months ago - Pushed at: over 1 year ago - Stars: 0 - Forks: 0

afids/afids-validator

Validator for the anatomical fiducial placement protocol

Language: Python - Size: 8.72 MB - Last synced at: over 1 year ago - Pushed at: over 1 year ago - Stars: 2 - Forks: 4

SainsburyWellcomeCentre/neuro 📦

Visualisation and analysis of brain imaging data

Language: Python - Size: 13.5 MB - Last synced at: over 1 year ago - Pushed at: almost 4 years ago - Stars: 10 - Forks: 4

natverse/flycircuit

R package flycircuit

Language: R - Size: 14.2 MB - Last synced at: over 1 year ago - Pushed at: over 2 years ago - Stars: 4 - Forks: 2

jefferislab/LHlibrary

A R Shiny app for sharing and viewing lateral horn data

Language: R - Size: 422 MB - Last synced at: about 2 months ago - Pushed at: over 6 years ago - Stars: 2 - Forks: 1

scil-vital/tractolearn

Tractography learning

Language: Python - Size: 576 KB - Last synced at: over 1 year ago - Pushed at: over 1 year ago - Stars: 5 - Forks: 4

YasPHP/BrainAR

A neuroanatomy-based augmented reality experience powered by OpenCV. Features 3D visuals of the Atlas Brain Map slices with real-time ArUco marker detection.

Language: Python - Size: 3.86 MB - Last synced at: almost 2 years ago - Pushed at: about 4 years ago - Stars: 12 - Forks: 1

volBrain/AssemblyNet

AssemblyNet: 3D Whole Brain MRI segmentation pipeline

Size: 53.4 MB - Last synced at: almost 2 years ago - Pushed at: about 2 years ago - Stars: 34 - Forks: 6

tferr/hIPNAT 📦

:microscope::deciduous_tree::computer: hIPNAT: Image Processing for NeuroAnatomy and Tree-like structures (Archived)

Language: Java - Size: 228 KB - Last synced at: almost 2 years ago - Pushed at: almost 4 years ago - Stars: 2 - Forks: 2

sergioluengosanchez/EMS_clustering

A directional-linear finite mixture model for clustering

Language: R - Size: 16.5 MB - Last synced at: almost 2 years ago - Pushed at: over 6 years ago - Stars: 2 - Forks: 0

volBrain/DeeplesionBrain

Size: 1.95 KB - Last synced at: almost 2 years ago - Pushed at: about 2 years ago - Stars: 6 - Forks: 0

natverse/elmr

Support for working with light and electron microscopy fly brain data

Language: R - Size: 70 MB - Last synced at: over 1 year ago - Pushed at: about 2 years ago - Stars: 7 - Forks: 3

sebastianmarkow/pam Fork of MartinPyka/Parametric-Anatomical-Modeling 📦

Novel method to translate spatial anatomical data into spiking neural networks (SNNs).

Language: Python - Size: 11.5 MB - Last synced at: about 2 years ago - Pushed at: over 4 years ago - Stars: 1 - Forks: 0

francopestilli/life

Please use the new version of LiFE: www.github.com/brain-life/encode

Language: Matlab - Size: 5.42 MB - Last synced at: about 1 year ago - Pushed at: almost 8 years ago - Stars: 35 - Forks: 15

Webwhistle/3DSlicer

Python script that quizzes you on neuroanatomy in different mri views in 3DSlicer. (in swedish)

Language: Python - Size: 147 KB - Last synced at: over 2 years ago - Pushed at: over 2 years ago - Stars: 0 - Forks: 1

YasPHP/BrainEncyclopedia

A discord bot that acts as an encyclopedia about brain anatomy. Provides brain region lookup, image search, crowd science neuro research, and retrieves neuroscience libraries.

Language: JavaScript - Size: 3.17 MB - Last synced at: over 2 years ago - Pushed at: over 4 years ago - Stars: 3 - Forks: 1