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The Top 21 Calcium Imaging Open Source Projects

Open source projects categorized as Calcium Imaging
Categories > Calcium Imaging
Caiman ⭐ 571
Computational toolbox for large scale Calcium Imaging Analysis, including movie handling, motion correction, source extraction, spike deconvolution and result visualization.
dependent packages 1total releases 30most recent commit 5 months ago
Caiman Matlab ⭐ 236
Complete Matlab pipeline for large scale calcium imaging data analysis
most recent commit a year ago
Normcorre ⭐ 132
Matlab routines for online non-rigid motion correction of calcium imaging data
most recent commit 2 years ago
Cascade ⭐ 87
Calibrated inference of spiking from calcium ΔF/F data using deep networks
most recent commit 5 months ago
Ciatah ⭐ 77
CIAtah (pronounced cheetah): a software package for calcium imaging analysis of one- and two-photon imaging datasets. Documentation: https://git.io/ciatah_docs. Formerly known as calciumImagingAnalysis (ciapkg).
most recent commit 5 months ago
Mesmerize ⭐ 57
Platform for Calcium Imaging analysis. DEPRECATED.
total releases 16most recent commit 6 months ago
Support ⭐ 46
Accurate denoising of voltage imaging data through statistically unbiased prediction, Nature Methods.
most recent commit 4 months ago
Mesmerize Core ⭐ 43
High level pandas-based API for batch analysis of Calcium Imaging data using CaImAn
most recent commit 6 months ago
Neuroglia ⭐ 30
a Python machine learning library for neurophysiology data
total releases 1most recent commit 6 years ago
Optinist ⭐ 28
calcium imaging pipeline tool
most recent commit 5 months ago
Imaging_tools ⭐ 22
A table containing imaging analysis tools for biology, with a focus on calcium imaging.
most recent commit 8 months ago
Flow_registration ⭐ 17
Flow-Registration toolbox for 2P motion compensation
most recent commit 5 months ago
Deep Calcium ⭐ 16
Fast, Simple Calcium Imaging Segmentation with Fully Convolutional Networks (https://arxiv.org/abs/1707.06314)
most recent commit 4 years ago
Sid ⭐ 14
Seeded Iterative Demixing (SID) of neuronal activity recordings made using Light Field Microscopy (LFM)
most recent commit 4 years ago
Hnccorr ⭐ 13
HNCcorr algorithm for neuron identification in calcium imaging datasets.
total releases 4most recent commit a year ago
Samuroi ⭐ 11
SamuROI - Structured analysis of multiple user-defined ROIs, an open source Python-based analysis environment for imaging data.
total releases 1most recent commit 5 years ago
Bonsai.miniscope ⭐ 11
Bonsai package for controlling headborne, calcium imaging miniscopes
most recent commit 4 months ago
Graft Analysis ⭐ 10
This repository contains code for morphology-free analysis of functional fluorescence microscopy. The focal algorithm, Graph-Filtered Time-trace (GraFT) Dictionary Learning, is published in Charles et al. 2022 in the IEEE Transactions of Image Processing.
most recent commit 7 months ago
Bear ⭐ 8
Official code for BEAR. "Efficient neural network approximation of robust PCA for automated analysis of calcium imaging data", MICCAI 2021.
most recent commit 2 years ago
Pvsnp ⭐ 7
a Python toolbox for reproducible analysis and visualization of NeuroPhysiological data.
most recent commit 5 years ago
Finderspiker ⭐ 7
Signal Processing Toolbox for Calcium Imaging Data
most recent commit 6 months ago
The 5 Latest Releases In Calcium Imaging Open Source Projects
Mesmerize ⭐ 57
Platform for Calcium Imaging analysis. DEPRECATED.
total releases 16latest release June 01, 2022most recent commit 6 months ago
Hnccorr ⭐ 13
HNCcorr algorithm for neuron identification in calcium imaging datasets.
total releases 4latest release May 06, 2020most recent commit a year ago
Neuroglia ⭐ 30
a Python machine learning library for neurophysiology data
total releases 1latest release February 12, 2018most recent commit 6 years ago
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