Complete Matlab pipeline for large scale calcium imaging data analysis
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Updated
Jul 4, 2023 - MATLAB
Complete Matlab pipeline for large scale calcium imaging data analysis
Matlab routines for online non-rigid motion correction of calcium imaging data
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).
Seeded Iterative Demixing (SID) of neuronal activity recordings made using Light Field Microscopy (LFM)
An open-source automated surgical instrument for microendoscope implantation
Automated Cell Segmentation by Adaptive Thresholding (ACSAT)
Drawing ROIs with a non-graphical user interface
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.
Flow-Registration toolbox for 2P motion compensation
Matlab functions to convert calcium imaging data and associated intracellular electrophysiology data to Neurodata Without Borders (NWB) file format
Collection of LabView & Matlab tools for simultaneous calcium & fMRI measurements
This repository is a streamlined Miniscope Analysis pipeline that utilizes open source projects to motion correct, extract curate and align Miniscope data.
Repository for the article "Distributed chromatic processing at the interface between retina and brain in the larval zebrafish", Guggiana et al. 2021, Curr. Bio.
2-Photon Imaging Data Registration/Alignment Across Recording Days. Created for Apostolides Lab, rotation 2, Fall 2020.
CalciumImaging analysis matlab pipeline for suite2p outputs
Toolbox for fast, variational 1D alignment
Code to analyze calcium imaging data in Algamal et al. 2022, doi: https://doi.org/10.1101/2022.04.27.489759
3D files for an active commutator, endoscope encasing, etc
Calcium signal processing algorithm for automated analysis of intracellular calcium responses
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