ClearAnatomics / ClearMapLinks
ClearMap 2 with WobblyStitcher, TubeMap and CellMap
☆132Updated 2 weeks ago
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.☆141Updated this week
- Tools for distributed alignment of massive images☆91Updated 3 weeks ago
- A python package which aligns histology to the Allen Brain Atlas and Waxholm rat atlas using deep learning.☆109Updated 4 months ago
- ClearMap is a python toolbox for the analysis and registration of volumetric data from cleared tissues.☆53Updated 5 years ago
- The framework for quantification of neuronal anatomy☆55Updated last week
- A 2D-3D histological brain slice registration application for mouse, rat, zebrafish brains.☆36Updated 2 years ago
- A visualization app for 3D-registered data processed in ABBA and QuPath☆20Updated 3 years ago
- ☆19Updated 3 years ago
- ☆46Updated 5 years ago
- 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…☆19Updated 4 years 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
- A napari plugin for direct 3D cell segmentation -- taking you through training, inference, and review of masks☆112Updated 3 months ago
- ☆41Updated last year
- Automated 3D cell detection in very large images☆223Updated this week
- Read and write ImageJ ROI format.☆83Updated last month
- Deep Learning for EM Connectomics☆16Updated 3 years ago
- Generate consensus 3D cells segmentations by combining 2D cell segmentations from any combination of xy, xz, yz views, compatible with ou…☆51Updated last month
- ABBA - Aligning Big Brains and Atlases (2D sections to 3D atlas registration)☆56Updated 3 weeks ago
- Scalable Neuroglancer compatible Downsampling, Meshing, Skeletonizing, Contrast Normalization, Transfers and more.☆63Updated last month
- BIRDS plug-in on Fiji and attached jar package☆21Updated 4 years ago
- Developing a Brain Atlas through Deep Learning☆53Updated 5 months ago
- Registration to BrainGlobe atlases in napari using Elastix☆27Updated this week
- A python algorithm for tracking cells in 3D deforming organs☆66Updated last month
- A Python interface to access neuroanatomical atlases☆170Updated 2 weeks ago
- www.vaa3d.org☆80Updated 7 years ago
- Fiji pipeline for automated serial section reconstruction and mouse brain analysis.☆30Updated 2 years ago
- ☆23Updated 4 months ago
- A python toolbox for locating and exporting brain regions from mouse brain images.☆12Updated last year