Computational toolbox for large scale Calcium Imaging Analysis, including movie handling, motion correction, source extraction, spike deconvolution and result visualization.
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Dec 13, 2024 - Python
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calcium-imaging
Here are 117 public repositories matching this topic...
Complete Matlab pipeline for large scale calcium imaging data analysis
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Jul 4, 2023 - MATLAB
Matlab routines for online non-rigid motion correction of calcium imaging data
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May 29, 2022 - MATLAB
Calibrated inference of spiking from calcium ΔF/F data using deep networks
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Dec 20, 2024 - Jupyter Notebook
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).
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Nov 14, 2024 - MATLAB
Accurate denoising of voltage imaging data through statistically unbiased prediction, Nature Methods.
deep-learning neural-network calcium-imaging microscopy structural-imaging denoising time-lapse-imaging self-supervised-learning voltage-imaging
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Jun 19, 2024 - Python
High level pandas-based API for batch analysis of Calcium Imaging data using CaImAn
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Oct 24, 2024 - Python
Platform for Calcium Imaging analysis. DEPRECATED.
signal-processing neuroscience plotting calcium-imaging interactive-visualizations caiman pypi-package calcium-imaging-analysis
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Nov 26, 2023 - Python
A table containing imaging analysis tools for biology, with a focus on calcium imaging.
neuroscience imaging-informatics calcium-imaging motion-correction imaging neuroscience-methods signal-extraction imaging-analysis
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Sep 15, 2023
a Python machine learning library for neurophysiology data
python machine-learning scikit-learn neuroscience open-science electrophysiology nwb calcium-imaging neurophysiology
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Nov 10, 2018 - Python
Fast, Simple Calcium Imaging Segmentation with Fully Convolutional Networks (https://arxiv.org/abs/1707.06314)
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Dec 8, 2022 - Python
Seeded Iterative Demixing (SID) of neuronal activity recordings made using Light Field Microscopy (LFM)
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Feb 26, 2020 - MATLAB
Flow-Registration toolbox for 2P motion compensation
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Jul 26, 2024 - MATLAB
SamuROI - Structured analysis of multiple user-defined ROIs, an open source Python-based analysis environment for imaging data.
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Apr 9, 2019 - Python
Official code for BEAR. "Efficient neural network approximation of robust PCA for automated analysis of calcium imaging data", MICCAI 2021.
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Jun 16, 2022 - Jupyter Notebook
Real-time, interactive exploration of 3D image stacks
python gui numpy exploratory-data-analysis interactive-analysis segmentation pyqt calcium-imaging microscopy pyqtgraph cell-segmentation fluorescence-microscopy-imaging exploratory-data-visualizations fluorescence-data live-microscopy fluorescence-traces
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Nov 25, 2019 - Python
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.
image-processing calcium-imaging dictionary-learning graph-signal-processing calcium-imaging-analysis widefield-microscopy dendritic-imaging
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Nov 1, 2023 - MATLAB
HNCcorr algorithm for neuron identification in calcium imaging datasets.
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Feb 11, 2023 - Python
Bonsai package for controlling headborne, calcium imaging miniscopes
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Mar 4, 2024 - C#
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