Computational toolbox for large scale Calcium Imaging Analysis, including movie handling, motion correction, source extraction, spike deconvolution and result visualization.
☆716Feb 19, 2026Updated 2 weeks ago
Alternatives and similar repositories for CaImAn
Users that are interested in CaImAn are comparing it to the libraries listed below
Sorting:
- Complete Matlab pipeline for large scale calcium imaging data analysis☆258Jul 4, 2023Updated 2 years ago
- Matlab routines for online non-rigid motion correction of calcium imaging data☆154May 29, 2022Updated 3 years ago
- cell detection in calcium imaging recordings☆432Mar 1, 2026Updated last week
- Constrained Nonnegative Matrix Factorization for microEndoscopic data☆152Aug 2, 2024Updated last year
- Platform for Calcium Imaging analysis. DEPRECATED.☆62Nov 26, 2023Updated 2 years ago
- High level pandas-based API for batch analysis of Calcium Imaging data using CaImAn☆70Updated this week
- Tools for processing 2P recordings☆132Oct 9, 2023Updated 2 years ago
- Calibrated inference of spiking from calcium ΔF/F data using deep networks☆159Feb 11, 2026Updated 3 weeks ago
- Registration of cells across sessions.☆76Aug 20, 2024Updated last year
- miniscope analysis pipeline with interactive visualizations☆98Jul 19, 2024Updated last year
- CIAtah (pronounced cheetah): a software package for calcium imaging analysis of one- and two-photon imaging datasets. Documentation: http…☆99Nov 14, 2024Updated last year
- Fast, Simple Calcium Imaging Segmentation with Fully Convolutional Networks (https://arxiv.org/abs/1707.06314)☆29Dec 8, 2022Updated 3 years ago
- Deconvolution of calcium imaging data☆105Jan 21, 2025Updated last year
- Compression, denoising and demixing of functional imaging recordings☆29Jul 11, 2018Updated 7 years ago
- Software for the paper "Fast and robust active neuron segmentation in two-photon calcium imaging using spatio-temporal deep learning," Pr…☆67Sep 12, 2019Updated 6 years ago
- Python package for analysis of dynamic fluorescence microscopy data☆103Mar 14, 2019Updated 6 years ago
- EXTRACT is a tractable and robust automated cell extraction tool for calcium imaging, which extracts the activities of cells as time seri…☆85Feb 16, 2026Updated 3 weeks ago
- Calcium Data Extraction and Analysis☆49Dec 5, 2022Updated 3 years ago
- ☆34May 19, 2025Updated 9 months ago
- Blazing fast calcium imaging analysis toolbox☆21Jun 20, 2017Updated 8 years ago
- A package to analyse calcium imaging data recorded with the Miniscope.☆32Apr 11, 2022Updated 3 years ago
- Computational toolbox for analysis of calcium imaging data of neuronal populations☆33Sep 14, 2023Updated 2 years ago
- a visualization method for neural data☆241Apr 4, 2025Updated 11 months ago
- Framework for predicting neural activity from mouse orofacial movements tracked using a pose estimation model. Package also includes sing…☆185Jan 26, 2026Updated last month
- Single photon tools for Neuroscience☆36Oct 29, 2025Updated 4 months ago
- A Python toolbox for Fast Image Signal Separation Analysis, designed for Calcium Imaging data.☆33Updated this week
- This toolbox includes routines for using principal component analysis (PCA) and independent component analysis (ICA) to extract cellular …☆26Aug 18, 2018Updated 7 years ago
- ☆221Jun 3, 2024Updated last year
- Repo for CCN workshop on caiman and mesmerize in January 2023☆13Mar 3, 2023Updated 3 years ago
- The code takes as an input a time series vector of calcium observationsand produces samples from the posterior distribution of the underl…☆20Oct 21, 2016Updated 9 years ago
- code for reading and processing Allen Institute for Brain Science data☆377Feb 20, 2026Updated 2 weeks ago
- A table containing imaging analysis tools for biology, with a focus on calcium imaging.☆57Sep 15, 2023Updated 2 years ago
- DeepCAD-RT: Real-time denoising of fluorescence time-lapse imaging using deep self-supervised learning☆127May 28, 2025Updated 9 months ago
- A MINiscope 1-photon-based Calcium Imaging Signal Extraction PIPEline.☆64Jun 18, 2024Updated last year
- ☆41Sep 29, 2021Updated 4 years ago
- PYthon Neural Analysis Package☆357Feb 26, 2026Updated last week
- Widgets for calcium imaging analysis visualization in notebooks☆14Oct 19, 2024Updated last year
- benchmarking challenge for finding neurons in imaging data☆75Apr 10, 2019Updated 6 years ago
- spike extraction from calcium signals (Deneux et al., 2016)☆35Apr 9, 2020Updated 5 years ago