Python package for analysis of dynamic fluorescence microscopy data
☆105Mar 14, 2019Updated 7 years ago
Alternatives and similar repositories for sima
Users that are interested in sima are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- Matlab routines for online non-rigid motion correction of calcium imaging data☆159May 29, 2022Updated 4 years ago
- Blazing fast calcium imaging analysis toolbox☆21Jun 20, 2017Updated 9 years ago
- Collaborative Approach for eNhanced Denoising under Low-light Excitation☆20Updated this week
- This toolbox includes routines for using principal component analysis (PCA) and independent component analysis (ICA) to extract cellular …☆27Aug 18, 2018Updated 8 years ago
- Complete Matlab pipeline for large scale calcium imaging data analysis☆261Jul 4, 2023Updated 3 years ago
- Deploy to Railway using AI coding agents - Free Credits Offer • AdUse Claude Code, Codex, OpenCode, and more. Autonomous software development now has the infrastructure to match with Railway.
- Tools for processing 2P recordings☆132Oct 9, 2023Updated 2 years ago
- Computational toolbox for large scale Calcium Imaging Analysis, including movie handling, motion correction, source extraction, spike dec…☆734Aug 2, 2026Updated last month
- Match suite2p ROIs between imaging sessions☆28Apr 12, 2019Updated 7 years ago
- Registration of cells across sessions.☆79Jul 2, 2026Updated 2 months ago
- cell detection in calcium imaging recordings☆472Aug 23, 2026Updated 2 weeks ago
- Computational toolbox for analysis of calcium imaging data of neuronal populations☆33Sep 14, 2023Updated 2 years ago
- benchmarking challenge for finding neurons in imaging data☆77Apr 10, 2019Updated 7 years ago
- ☆43Sep 29, 2021Updated 4 years ago
- motion correction☆17Jan 27, 2023Updated 3 years ago
- Managed hosting for WordPress and PHP on Cloudways • AdManaged hosting for WordPress, Magento, Laravel, or PHP apps, on multiple cloud providers. Deploy in minutes on Cloudways by DigitalOcean.
- 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
- Constrained Nonnegative Matrix Factorization for microEndoscopic data☆153Aug 2, 2024Updated 2 years ago
- EXTRACT is a tractable and robust automated cell extraction tool for calcium imaging, which extracts the activities of cells as time seri…☆91Mar 11, 2026Updated 5 months ago
- Convert Matlab v7.3 '.mat' files (i.e. HDF5 file format) into Python's pickle or numpy format.☆37Jul 29, 2012Updated 14 years ago
- Calcium Data Extraction and Analysis☆50Dec 5, 2022Updated 3 years ago
- ☆15Feb 26, 2025Updated last year
- An interactive image processing program for biologists written in Python.☆26Mar 4, 2026Updated 6 months ago
- Database for experimental neuroscience laboratories☆52Updated this week
- A Python toolbox for Fast Image Signal Separation Analysis, designed for Calcium Imaging data.☆34Aug 31, 2026Updated last week
- Serverless GPU API endpoints on Runpod - Get Bonus Credits • AdSkip the infrastructure headaches. Auto-scaling, pay-as-you-go, no-ops approach lets you focus on innovating your application.
- Extract regions of interest based on correlated pixel intensity☆24May 9, 2017Updated 9 years ago
- SamuROI - Structured analysis of multiple user-defined ROIs, an open source Python-based analysis environment for imaging data.☆17Apr 9, 2019Updated 7 years ago
- pyPhotometry code, GUI and micropython firmware☆16Jun 5, 2026Updated 3 months ago
- A package to analyse calcium imaging data recorded with the Miniscope.☆32Apr 11, 2022Updated 4 years ago
- Deconvolution of calcium imaging data☆111Jul 15, 2026Updated last month
- Automatic cell detection in microscopy data using convolutional networks☆34Nov 22, 2022Updated 3 years ago
- ☆20Jun 7, 2026Updated 3 months ago
- 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
- ClearMap is a python toolbox for the analysis and registration of volumetric data from cleared tissues.☆53Jun 18, 2020Updated 6 years ago
- Serverless GPU API endpoints on Runpod - Get Bonus Credits • AdSkip the infrastructure headaches. Auto-scaling, pay-as-you-go, no-ops approach lets you focus on innovating your application.
- Python tools for ImageJ☆13Jul 25, 2021Updated 5 years ago
- GUI to compute and explore receptive fields, primarily from calcium imaging recordings☆13Jun 26, 2021Updated 5 years ago
- Neuropixels trajectory explorer with the Allen CCF mouse atlas☆82Aug 12, 2026Updated 3 weeks ago
- Reads ImageJ ROI files into numpy arrays.☆14Feb 21, 2019Updated 7 years ago
- Notebooks to accompany sofroniew-vlasov-2015☆10May 18, 2019Updated 7 years ago
- Analysis code to create the figures in "Cycle by cycle analysis of neural oscillations"☆15May 25, 2020Updated 6 years ago
- Laser scanning microscope acquisition software☆18Feb 27, 2025Updated last year