A python package which aligns histology to the Allen Brain Atlas and Waxholm rat atlas using deep learning.
☆134Sep 8, 2026Updated last month
Alternatives and similar repositories for DeepSlice
Users that are interested in DeepSlice 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)☆61Oct 18, 2026Updated 2 weeks ago
- ☆41Sep 4, 2025Updated last year
- ABBA, controlled from python☆21Oct 15, 2026Updated 2 weeks ago
- Deep-learning based pipeline for analysis of whole-brain light sheet microscopy images☆11Sep 13, 2024Updated 2 years ago
- Registration to BrainGlobe atlases in napari using Elastix☆34Oct 13, 2026Updated 2 weeks ago
- Deploy open-source AI quickly and easily - Special Bonus Offer • AdRunpod Hub is built for open source. One-click deployment and autoscaling endpoints without provisioning your own infrastructure.
- Automated 3D brain registration with support for multiple species and atlases.☆151Oct 20, 2026Updated 2 weeks ago
- UNRAVEL: UN-biased high-Resolution Analysis and Validation of Ensembles using Light sheet images☆14Oct 22, 2026Updated last week
- Rendering anatomical heatmaps with brainrender and matplotlib☆53Oct 20, 2026Updated last week
- ☆58Aug 30, 2024Updated 2 years ago
- ImageJ Plugin for Flexible Atlas Segmentation Tool for Multi-Area Processing☆23Jul 4, 2022Updated 4 years ago
- A collection of tools for whole-brain data extraction☆12Jul 31, 2026Updated 3 months ago
- Brainways☆25Aug 28, 2025Updated last year
- A Python package to visualise neuroanatomical data in atlas space☆682Oct 13, 2026Updated 3 weeks ago
- R package for segmentation, registration and generating web-based brain atlases from microscope images☆93Jul 16, 2021Updated 5 years ago
- Managed hosting for WordPress and PHP on Cloudways • AdManaged hosting for WordPress, Magento, Laravel, or PHP apps, on multiple cloud providers. Deploy in minutes on Cloudways by DigitalOcean.
- A Python interface to access neuroanatomical atlases☆190Oct 26, 2026Updated last week
- A 2D-3D histological brain slice registration application for mouse, rat, zebrafish brains.☆40Nov 24, 2023Updated 2 years ago
- Tools to register histological section images and cell count locations to mouse brain atlas☆27May 22, 2022Updated 4 years ago
- Multi-probe trajectory planning in an intuitive 3D environment☆65Aug 11, 2026Updated 2 months ago
- Python library for brain-wide quantification and spatial analysis.☆12Jun 26, 2026Updated 4 months ago
- Access the Allen Brain Atlas API from MATLAB☆10Oct 15, 2017Updated 9 years ago
- SimBA (Simple Behavioral Analysis): a pipeline and GUI for developing supervised behavioral classifiers from any major pose-estimation to…☆382Updated this week
- Neuropixels trajectory explorer with the Allen CCF mouse atlas☆82Aug 12, 2026Updated 2 months ago
- A visualization app for 3D-registered data processed in ABBA and QuPath☆21Oct 21, 2022Updated 4 years ago
- 1-Click AI Models by DigitalOcean Gradient • AdDeploy popular AI models on DigitalOcean Gradient GPU virtual machines with just a single click. Zero configuration with optimized deployments.
- Facemap: Framework for predicting neural activity from mouse orofacial movements tracked using a pose estimation model. Package also incl…☆204Jan 26, 2026Updated 9 months ago
- Calibrated inference of spiking from calcium ΔF/F data using deep networks☆171Updated this week
- Shared general purpose tools for the BrainGlobe project☆13Oct 26, 2026Updated last week
- Histology processing☆81Sep 23, 2026Updated last month
- ☆18Feb 1, 2024Updated 2 years ago
- Automated 3D cell detection in very large images☆232Oct 23, 2026Updated last week
- Universal Renderer for Neuroscience☆16Nov 4, 2025Updated 11 months ago
- Tools to work with Allen Inst CCF data in matlab☆155Jul 15, 2025Updated last year
- Fast spike sorting with drift correction☆636Sep 25, 2026Updated last month
- GPU virtual machines on DigitalOcean Gradient AI • AdGet to production fast with high-performance AMD and NVIDIA GPUs you can spin up in seconds. The definition of operational simplicity.
- OpenScope databook: a collaborative, versioned, data-centric collection of foundational analyses for reproducible systems neuroscience 🐁…☆76Updated this week
- Tools for analysis of functional ultrasound imaging data☆10Jul 3, 2020Updated 6 years ago
- Anatomical space conventions made easy.☆13Oct 13, 2026Updated 3 weeks ago
- A tool for drawing ROIs on videos and analysing deeplabcut videos.☆35Apr 24, 2026Updated 6 months ago
- A Python-based module for creating flexible and robust spike sorting pipelines.☆870Updated this week
- ☆47Jun 18, 2026Updated 4 months ago
- ☆40Mar 4, 2024Updated 2 years ago