EXTRACT is a tractable and robust automated cell extraction tool for calcium imaging, which extracts the activities of cells as time series from both one-photon and two-photon calcium imaging movies.
☆90Mar 11, 2026Updated 4 months ago
Alternatives and similar repositories for EXTRACT-public
Users that are interested in EXTRACT-public are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- ActSort is an active learning accelerated cell sorter tool for calcium imaging.☆26Apr 27, 2026Updated 2 months ago
- CIAtah (pronounced cheetah): a software package for calcium imaging analysis of one- and two-photon imaging datasets. Documentation: http…☆101Nov 14, 2024Updated last year
- Calibrated inference of spiking from calcium ΔF/F data using deep networks☆166May 29, 2026Updated last month
- ☆10Jan 16, 2024Updated 2 years ago
- Compression, denoising and demixing of functional imaging recordings☆30Jul 11, 2018Updated 8 years ago
- Virtual machines for every use case on DigitalOcean • AdGet dependable uptime with 99.99% SLA, simple security tools, and predictable monthly pricing with DigitalOcean's virtual machines, called Droplets.
- Open source ca imaging processing tools to aquire neural traces from 2 photon image sequences☆12May 28, 2026Updated last month
- Calcium Data Extraction and Analysis☆50Dec 5, 2022Updated 3 years ago
- A table containing imaging analysis tools for biology, with a focus on calcium imaging.☆57Sep 15, 2023Updated 2 years ago
- Matlab routines for online non-rigid motion correction of calcium imaging data☆159May 29, 2022Updated 4 years ago
- cell detection in calcium imaging recordings☆463Jul 1, 2026Updated 3 weeks ago
- Computational toolbox for large scale Calcium Imaging Analysis, including movie handling, motion correction, source extraction, spike dec…☆725Jun 27, 2026Updated 3 weeks ago
- Facemap: Framework for predicting neural activity from mouse orofacial movements tracked using a pose estimation model. Package also incl…☆199Jan 26, 2026Updated 5 months ago
- Algorithm for automated source extraction from 1P data☆24Jun 16, 2023Updated 3 years ago
- spike extraction from calcium signals (Deneux et al., 2016)☆36Apr 9, 2020Updated 6 years ago
- Deploy on Railway without the complexity - Free Credits Offer • AdConnect your repo and Railway handles the rest with instant previews. Quickly provision container image services, databases, and storage volumes.
- Registration of cells across sessions.☆78Jul 2, 2026Updated 3 weeks ago
- ☆18May 26, 2023Updated 3 years ago
- Neuropixels trajectory explorer with the Allen CCF mouse atlas☆82Jul 10, 2026Updated 2 weeks ago
- A MATLAB toolbox for interacting with the Allen Brain Observatory☆22Mar 30, 2026Updated 3 months ago
- Fast, volumetric cell detection. In development.☆24Jul 10, 2026Updated 2 weeks ago
- Platform for Calcium Imaging analysis. DEPRECATED.☆63Nov 26, 2023Updated 2 years ago
- A MINiscope 1-photon-based Calcium Imaging Signal Extraction PIPEline.☆65Jun 18, 2024Updated 2 years ago
- Deconvolution of calcium imaging data☆110Jul 15, 2026Updated last week
- A simple GUI for automatic and manual alignment across calcium imaging sessions.☆15Jul 2, 2026Updated 3 weeks ago
- Deploy on Railway without the complexity - Free Credits Offer • AdConnect your repo and Railway handles the rest with instant previews. Quickly provision container image services, databases, and storage volumes.
- IaC codebase for the NeuroCAAS Platform☆40Dec 15, 2023Updated 2 years ago
- ☆42Sep 29, 2021Updated 4 years ago
- Image processing pipeline to correct motion artifacts and complex image distortions in neuronal calcium imaging data.☆28Dec 21, 2023Updated 2 years ago
- Denoising and Demixing Pipeline for in vivo Voltage Imaging Data (SGPMD-NMF)☆15Apr 24, 2023Updated 3 years ago
- Match suite2p ROIs between imaging sessions☆28Apr 12, 2019Updated 7 years ago
- a visualization method for neural data☆256Apr 4, 2025Updated last year
- Code published with the paper J. Mölter, L. Avitan, and G. J. Goodhill. "Detecting neural assemblies in calcium imaging data". BMC Biolog…☆11Apr 30, 2019Updated 7 years ago
- ☆15May 24, 2021Updated 5 years ago
- DeepCAD-RT: Real-time denoising of fluorescence time-lapse imaging using deep self-supervised learning☆130May 28, 2025Updated last year
- GPUs on demand by Runpod - Special Offer Available • AdRun AI, ML, and HPC workloads on powerful cloud GPUs—without limits or wasted spend. Deploy GPUs in under a minute and pay by the second.
- Hennestad et al. 2022☆23Jun 8, 2026Updated last month
- The codes, software, models, protocols, and etc. for building and using MINI2P to do the freely-moving recording and analysis. More detai…☆110Oct 27, 2023Updated 2 years ago
- Tools for processing 2P recordings☆132Oct 9, 2023Updated 2 years ago
- Software for the paper "Fast and robust active neuron segmentation in two-photon calcium imaging using spatio-temporal deep learning," Pr…☆68Sep 12, 2019Updated 6 years ago
- CHIPS, or Cellular and Hemodynamic Image Processing Suite, is an open-source MATLAB toolbox designed to analyse functional images of cell…☆17Oct 13, 2021Updated 4 years ago
- Constrained Nonnegative Matrix Factorization for microEndoscopic data☆151Aug 2, 2024Updated last year
- Computational toolbox for analysis of calcium imaging data of neuronal populations☆33Sep 14, 2023Updated 2 years ago