lahammond / BrainJLinks
Fiji pipeline for automated serial section reconstruction and mouse brain analysis.
☆29Updated 2 years ago
Alternatives and similar repositories for BrainJ
Users that are interested in BrainJ are comparing it to the libraries listed below
Sorting:
- ☆52Updated last year
- Brainways☆21Updated 2 months ago
- Repository for BehaviorDEPOT pipeline app files and source code☆38Updated last year
- A python package which aligns histology to the Allen Brain Atlas and Waxholm rat atlas using deep learning.☆106Updated 2 months ago
- Rendering anatomical heatmaps with brainrender and matplotlib☆44Updated 3 weeks ago
- Histology processing☆71Updated last month
- ☆18Updated 3 years ago
- Fiber Photometry Modular Analysis Tool Suite☆40Updated 4 years ago
- Automated 3D cell detection in very large images☆219Updated 3 weeks ago
- Automated 3D brain registration with support for multiple species and atlases.☆138Updated 3 weeks ago
- miniscope analysis pipeline with interactive visualizations☆95Updated last year
- Platform for Calcium Imaging analysis. DEPRECATED.☆62Updated last year
- High level pandas-based API for batch analysis of Calcium Imaging data using CaImAn☆69Updated last month
- Registration of cells across sessions.☆75Updated last year
- A table containing imaging analysis tools for biology, with a focus on calcium imaging.☆52Updated 2 years ago
- A Python interface to access neuroanatomical atlases☆164Updated 3 weeks ago
- Calibrated inference of spiking from calcium ΔF/F data using deep networks☆152Updated 2 weeks ago
- A gui for browsing joint calcium imaging + behavioral data.☆54Updated 9 months ago
- ☆34Updated 5 months ago
- ☆10Updated 2 years ago
- Multi-probe trajectory planning in an intuitive 3D environment☆56Updated 3 weeks ago
- Framework for predicting neural activity from mouse orofacial movements tracked using a pose estimation model. Package also includes sing…☆178Updated 3 months ago
- Tools to register histological section images and cell count locations to mouse brain atlas☆28Updated 3 years ago
- a napari plugin for labeling and refining keypoint data within DeepLabCut projects☆59Updated last month
- Image processing pipeline to correct motion artifacts and complex image distortions in neuronal calcium imaging data.☆26Updated last year
- Implementation of "Precise Mapping of Single Neurons by Calibrated 3D Reconstruction of Brain Slices Reveals Topographic Projection in Mo…☆16Updated 3 years ago
- ImageJ Plugin for Flexible Atlas Segmentation Tool for Multi-Area Processing☆23Updated 3 years ago
- Read and write files from the BrainGlobe neuroanatomy suite☆14Updated 3 weeks ago
- CIAtah (pronounced cheetah): a software package for calcium imaging analysis of one- and two-photon imaging datasets. Documentation: http…☆99Updated 11 months ago
- A package to manage electrophysiology analysis.☆23Updated last week