ClearAnatomics / ClearMapLinks
ClearMap 2 with WobblyStitcher, TubeMap and CellMap
☆138Updated last month
Alternatives and similar repositories for ClearMap
Users that are interested in ClearMap are comparing it to the libraries listed below
Sorting:
- Automated 3D brain registration with support for multiple species and atlases.☆143Updated last week
- Tools for distributed alignment of massive images☆92Updated last week
- A python package which aligns histology to the Allen Brain Atlas and Waxholm rat atlas using deep learning.☆113Updated 5 months ago
- ClearMap is a python toolbox for the analysis and registration of volumetric data from cleared tissues.☆53Updated 5 years ago
- A 2D-3D histological brain slice registration application for mouse, rat, zebrafish brains.☆37Updated 2 years ago
- The framework for quantification of neuronal anatomy☆55Updated this week
- 3D Extension of the Cellpose Algorithm by Stringer et al., 2021.☆35Updated 3 years ago
- Intensify3D is an image normalization tool for large scale fluorescent imaging. It corrects heterogeneities in the signal (defined by the…☆20Updated 4 years ago
- ☆19Updated 3 years ago
- ☆46Updated 5 years ago
- A visualization app for 3D-registered data processed in ABBA and QuPath☆20Updated 3 years ago
- ☆41Updated last year
- Scalable Neuroglancer compatible Downsampling, Meshing, Skeletonizing, Contrast Normalization, Transfers and more.☆65Updated 3 weeks ago
- Deep Learning for EM Connectomics☆16Updated 3 years ago
- A napari plugin for direct 3D cell segmentation -- taking you through training, inference, and review of masks☆114Updated 4 months ago
- ImageJ Plugin for Flexible Atlas Segmentation Tool for Multi-Area Processing☆24Updated 3 years ago
- Software for the paper "Fast and robust active neuron segmentation in two-photon calcium imaging using spatio-temporal deep learning," Pr…☆67Updated 6 years ago
- Read and write ImageJ ROI format.☆84Updated last week
- Toolkit for the generation and analysis of volume eletron microscopy based synaptic connectomes of brain tissue.☆43Updated 6 months ago
- ABBA - Aligning Big Brains and Atlases (2D sections to 3D atlas registration)☆56Updated last week
- Automated 3D cell detection in very large images☆223Updated last week
- Experimental code and examples for: Automated analysis of whole brain vasculature using machine learning☆76Updated 4 years ago
- Utils and convenience functions for large-scale bio-image analysis.☆60Updated last month
- Generate consensus 3D cells segmentations by combining 2D cell segmentations from any combination of xy, xz, yz views, compatible with ou…☆55Updated 2 months ago
- ☆16Updated this week
- Efficient cell detection in large images using cellfinder in napari☆22Updated 2 years ago
- Developing a Brain Atlas through Deep Learning☆53Updated 6 months ago
- BIRDS plug-in on Fiji and attached jar package☆21Updated 4 years ago
- www.vaa3d.org☆80Updated 7 years ago
- Stitching of large tiled datasets☆21Updated 10 months ago