search

Tyelab / bruker_control

Repository for code running the lab's multi-photon imaging experiments at the Bruker Ultima Investigator scope. Unites Arduino, Prairie View, and GenTL machine cameras in Python.
Mozilla Public License 2.0
8 stars 3 forks source link

Update docs with Preamplifier Offset Discovery #144

Open jmdelahanty opened 1 year ago

jmdelahanty commented 1 year ago

Austin told me today that although the image quality is indeed better with the pre-amplifier offset in place, suite2p appears to struggle a bit more with finding as many cells as before. I'm wondering if this can be overcome by altering the algorithms parameters. It might be worth it to try at the very least.

Either way, we should be updating the docs to say that while we get better looking images, we're not necessarily getting higher quality data. Needs further investigation for sure...

jmdelahanty commented 1 year ago

I'll put images here eventually from Austin's suite2p runs, but maybe something worth thinking about @mannk2

jmdelahanty commented 1 year ago

It should be noted that with this no longer taken care of with the pre-amplifier offset Austin has reported the vertical lines have reappeared in the data. I think it's likely there's some slightly different suite2p parameters that could find just as many cells as before, but I don't know/think we'll have time to actually investigate this too much...