Build your own camera-based multi-fiber and multi-color fiber photometry (FIP) system!
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Updated
Aug 23, 2024 - Jupyter Notebook
Build your own camera-based multi-fiber and multi-color fiber photometry (FIP) system!
High level pandas-based API for batch analysis of Calcium Imaging data using CaImAn
Calibrated inference of spiking from calcium ΔF/F data using deep networks
Analysis pipeline for high-speed, high-resolution microscopy datasets.
Computational toolbox for large scale Calcium Imaging Analysis, including movie handling, motion correction, source extraction, spike deconvolution and result visualization.
Code and tutorials for fitting generalized linear models (GLM) in Tensorflow 2
Simple tool for Calcium-imaging data preprocessing, based on timing-metadata from Olympus Fluoview sowtware
Codes related to the paper "Attention-Based CNN-BiLSTM for Sleep States Classification of Spatiotemporal Wide-Field Calcium Imaging Data"
Flow-Registration toolbox for 2P motion compensation
Drawing ROIs with a non-graphical user interface
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).
PVBS (Prairie View Browsing Solution) - General-purpose GUI for electrophysiology (patch clamp) and calcium imaging
Fully automated calcium imaging analysis Workflow
Experimentlal pure-python API to read Inscopix data
Analysis and characterisation of cells within the gut wall using deep learning models. The current focus is on studying enteric neurons and enteric glia.
Accurate denoising of voltage imaging data through statistically unbiased prediction, Nature Methods.
This is MATLAB script created and used via the Trinkaus-Randall Lab at Boston University for the analysis of epithelial cellular calcium signaling during wound healing.
Custom code (Python or Matlab) to compute centripetal propagation from astrocytic calcium recordings using pixel-wise correlation functions
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