Author Topic: pre-processing  (Read 1851 times)

Joma

  • Newbie
  • *
  • Karma: +0/-0
    • View Profile
pre-processing
« on: March 21, 2018, 06:58:50 PM »
Is there a way to downsample the video clips before starting the analysis suite?
I was thinking about binning - spatial downsampling - by a factor of 2 in each dimension (averaging across neighboring pixels).
what parameters in the code need to be changed? Bounderies of segments should be adjusted to the new frame dimensions, I guess.

best,

Joe

Daniel Aharoni

  • Administrator
  • Full Member
  • *****
  • Karma: +15/-0
    • View Profile
Re: pre-processing
« Reply #1 on: March 23, 2018, 04:25:41 PM »
Hi Joma,
We often spatially downsample by 2 when running analysis. I would suggest using the CaImAn package, https://github.com/flatironinstitute/CaImAn, and not the analysis code I have up on GitHub. The CaImAn package has some parameters to do downsampling as well.