A virtual workshop with lectures and hands-on tutorials that will teach participants how to use open-source Miniscopes for in vivo calcium imaging. This workshop is designed to introduce all aspects of using Miniscopes, including basic principles of Miniscope design and imaging, how to build and attach a Miniscope, how to implant a GRIN lens for imaging deep structures, and how to analyze imaging data. The workshop will also cover the most recent developments in Miniscope technology and highlight some of the best advances in this exciting and growing field.
2021 Virtual Miniscope Workshop
Course Features
Videos of lectures
Tutorials
Lessons of this Course
1
1
Duration:
16:23
The workshop was designed to introduce all aspects of using Miniscopes, including basic principles of Miniscope design and imaging, how to build and attach a Miniscope, how to implant a GRIN lens for imaging deep structures, and how to analyze imaging data. It also covered the most recent developments in Miniscope technology and highlighted some of the best advances in this exciting and growing field. The event was organized by Daniel Aharoni, Denise Cai, and Tristan Shuman, and it was hosted at MetaCell's Workspace for Calcium Imaging Analysis.
2
2
Duration:
42:15
Speaker:
This lesson is an overview of the Miniscope project. It will give motivation for why we have developed Miniscopes, how they've been developed, why they may be useful for researchers, and the differences between previous and current versions. While directly applicable to the UCLA Miniscope project, this information can be applied to most mainstream miniature microscopes, including both open source and commercially available models.
3
3
Duration:
1:00:40
Speaker:
This lesson will go through the theory and practical techniques for implanting a GRIN lens for imaging in mice.
4
4
Duration:
1:04:28
Learn how to build a Miniscope and stream data, including an overview of the software involved.
5
5
Duration:
00:53:34
Best practices: the tips and tricks on how to get your Miniscope to work and how to get your experiments off the ground.
6
6
Duration:
00:01:59
Speaker:
Overview of the content for Day 1 of this course.
8
8
Duration:
00:24:03
"Faster & more sensitive imaging with the MiniFAST" was presented by Caleb Kemere at the 2021 Virtual Miniscope Workshop as part of a series of talks by leading Miniscope users and developers.
9
9
Duration:
00:21:51
"Balancing size & function in compact miniscopes" was presented by Tycho Hoogland at the 2021 Virtual Miniscope Workshop as part of a series of talks by leading Miniscope users and developers.
10
10
Duration:
00:17:56
"Computational imaging for miniature miniscopes" was presented by Laura Waller at the 2021 Virtual Miniscope Workshop as part of a series of talks by leading Miniscope users and developers.
11
11
Duration:
00:21:06
"Online 1-photon vs 2-photon calcium imaging data analysis: Current developments and future plans" was presented by Andrea Giovannucci at the 2021 Virtual Miniscope Workshop as part of a series of talks by leading Miniscope users and developers.
12
12
Duration:
00:19:43
"Ensemble fluidity supports memory flexibility during spatial reversal" was presented by William Mau at the 2021 Virtual Miniscope Workshop as part of a series of talks by leading Miniscope users and developers.
13
13
Duration:
00:57:26
Speaker:
How to start processing the raw imaging data generated with a Miniscope, including developing a usable pipeline and demoing the Minion pipeline
14
14
Duration:
00:49:16
The direction of miniature microscopes, including both MetaCell and other groups.
15
15
Duration:
00:11:01
Speaker:
Overview of the content for Day 2 of this course.
16
16
Duration:
01:28:03
Speaker:
Running your own Minion session in the MetaCell cloud using jupityr notebooks
17
17
Duration:
00:20:34
Speaker:
Mimicking a kernel crash, and walking through the steps to restore your inputs.
18
18
Duration:
01:49:40
Speaker:
This lesson will go through how to extract cells from video that has been cleaned of background noise and motion.
20
20
Duration:
00:04:56
Speaker:
Summary and closing remarks for this three-day course.
