What's new
From Miniscope
This document walks through the typical analysis pipeline, what the dominant algorithms (especially CNMF-E variants) actually do, what one-photon (1p) data can and cannot tell you, and how to assess single-cell calcium activity quality.
A walkthrough of what considerations and adjustments need to be made to modify or purchase a Miniscope V4 designed to image something other than GCaMP such as rCaMP or PinkyCaMP
Reference procedures for animal and imaging preparation, and experimental setup using legacy Miniscope systems.
A day and a half of lectures and hands-on Miniscope activities at CSHL Imaging Structure and Function in the Nervous System 2026! From experimental design and hardware setup to data analysis and interpretation.
A day and a half of lectures and hands-on Miniscope activities centrally located in Research Triangle, NC! From experimental design and hardware setup to data analysis and interpretation.
A basic outline of our procedure for implanting a GRIN lens above the hippocampus for CA1 imaging written for the Miniscope V3.
Hands-on workshop covering the complete open-source Miniscope imaging pipeline! From experimental design and hardware setup to data analysis and interpretation.
Miniscope tools are driven by the community. When issues, bugs, or challenges come up, it is extremely helpful to us to know about them. This guide will walk you through the how, and why, of submitting problem/bug/issue to the Miniscope Project.
A workflow for cortical and deep region surgery and baseplating
A walk through of considerations when first testing a Miniscope V4 and some tips and tricks for debugging common issues that might come up across use.
A discussion of common issues and where to access additional guides and FAQs on the most reoccurring questions around Miniscopes.
An overview and workflow for thinking through and implementing freely behaving animals experiments
A walkthrough of steps to validate the functionality of a newly assembled Miniscope on the bench before moving to animal experiments.