Difference between revisions of "Analysis Package"
From UCLA Miniscope
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The MATLAB analysis package provided on this wiki contains the tools necessary for going from the raw microscope video to deconvolved individual neuron activity. Roughly speaking the steps involved are the following | The MATLAB analysis package provided on this wiki contains the tools necessary for going from the raw microscope video to deconvolved individual neuron activity. Roughly speaking the steps involved are the following | ||
*Generate MATLAB data structure. | *Generate MATLAB data structure. | ||
Revision as of 17:48, 5 January 2016
Overview
The MATLAB analysis package provided on this wiki contains the tools necessary for going from the raw microscope video to deconvolved individual neuron activity. Roughly speaking the steps involved are the following
- Generate MATLAB data structure.
- Correct for motion artifacts using an amplitude or FFT image registration algorithm.
- Identify the bountries of individual neurons (we provide a novel, fully automated segmentation approach).
- Extract dF/F activity for identified neurons.
- Deconvolve dF/F activity using Wiener or Fast Nonnegative deconvolution to approximate neuronal spiking pattern.
- Additional Analysis:
- Cross-talk removal
- Segment matching across sessions
- Behavior tracking and syncing to microscope data
- Activity detection
Image Registration
We suggest using Dario Ringach's recursive image registration algorithm.
Automated Segmentation
