Parent meeting: International Informal Microscopy Hour

Informal Microscopy Hour:
GCaMP imaging & analysis

Informal Microscopy Meeting focused on analysis of GCaMP data.

Our goal is to have an open discussion about challenges of microscopy and data analysis when performing calcium imaging. From photodamage to motion artifacts, from PCA to AAVs, from segmentation to data management – we hope to exchange real-life experience.

Next meeting:
Date to be announced...

To be updated, please fill the survey: forms.gle/W23w3YMk57ZpbwNX6

Contact: Andrey Andreev

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artwork by @KariHerrington, UCSF

Notes from previous meetings:

February 22nd, 2023

- comparing SimpleITK and ANTs - running linux-only code on Windows throug windows subsystem for linux - photodamage and optimizing laser power - https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7449752/ - https://elifesciences.org/articles/53205 - red-shifted indicators - https://pubs.acs.org/doi/10.1021/jacs.9b06092 - not every newest GCaMP is the best; some stick with GCaMP5 - example of 3D registration: https://www.sciencedirect.com/science/article/pii/S2211124722015194 - suite2P, CaImAn etc - what to pick? - manual registration via itk-SNAP http://www.itksnap.org/pmwiki/pmwiki.php - whats the difference / when to use nuclear-localized vs cyto- GCaMPs - image artifacts affect on registration - and more...