Fiji pipeline for automated serial section reconstruction and mouse brain analysis.
☆31Oct 13, 2023Updated 2 years ago
Alternatives and similar repositories for BrainJ
Users that are interested in BrainJ are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- ABBA - Aligning Big Brains and Atlases (2D sections to 3D atlas registration)☆59Updated this week
- Nextflow pipeline encapsulating workflows for analyzing expansion lattice light-sheet microscopy (ExLLSM) imagery☆13Apr 15, 2026Updated 2 months ago
- ☆39Mar 22, 2021Updated 5 years ago
- ☆18Feb 10, 2022Updated 4 years ago
- Brainways☆23Aug 28, 2025Updated 10 months ago
- AI Agents on DigitalOcean Gradient AI Platform • AdBuild production-ready AI agents using customizable tools or access multiple LLMs through a single endpoint. Create custom knowledge bases or connect external data.
- End-to-end light-sheet image analysis for mouse brains, with DL training data generated in VR☆35Jan 2, 2026Updated 6 months ago
- Process images using SimpleITK in napari☆23May 1, 2025Updated last year
- R package for segmentation, registration and generating web-based brain atlases from microscope images☆93Jul 16, 2021Updated 4 years ago
- Blue Brain multi-modal registration and alignment toolbox☆12Feb 14, 2024Updated 2 years ago
- ☆41Mar 4, 2024Updated 2 years ago
- A python package which aligns histology to the Allen Brain Atlas and Waxholm rat atlas using deep learning.☆126Jun 8, 2026Updated 3 weeks ago
- Collection of tools to handle Neuropixel 1.0 and 2.0 data☆19Jun 26, 2026Updated last week
- ☆14Sep 2, 2020Updated 5 years ago
- An open-source ecosystem of hardware and software for head-fixed behavior☆14Sep 25, 2025Updated 9 months ago
- Virtual machines for every use case on DigitalOcean • AdGet dependable uptime with 99.99% SLA, simple security tools, and predictable monthly pricing with DigitalOcean's virtual machines, called Droplets.
- ☆56Aug 30, 2024Updated last year
- A JupyterBook site for napari workshop materials☆10Jul 11, 2022Updated 3 years ago
- Registration to BrainGlobe atlases in napari using Elastix☆29Jun 21, 2026Updated last week
- This repository contains the code used for the paper "Molecular Atlas of the Adult Mouse Brain".☆16Feb 26, 2021Updated 5 years ago
- High-throughput Detection of Neurons for Brain-wide analysis with Deep Learning☆18Feb 21, 2022Updated 4 years ago
- 3D Extension of the Cellpose Algorithm by Stringer et al., 2021.☆36Oct 10, 2022Updated 3 years ago
- ClearMap 2 with WobblyStitcher, TubeMap and CellMap☆142Updated this week
- Prototype implementation of napari-integrated CNN training viewer☆14Dec 27, 2024Updated last year
- Robust online multiband drift estimation in electrophysiology data☆32Mar 21, 2026Updated 3 months ago
- Managed Database hosting by DigitalOcean • AdPostgreSQL, MySQL, MongoDB, Kafka, Valkey, and OpenSearch available. Automatically scale up storage and focus on building your apps.
- Anatomical space conventions made easy.