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galizia-lab / pyview

GUI + API for processing and visualizing Calcium imaging data. Largely based on the IDL software "VIEW" developed by Giovanni Galizia. Implemented in Python by Ajayrama Kumaraswamy
BSD 3-Clause "New" or "Revised" License
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LSM confocal files #4

Closed IngaPetelski closed 3 years ago

IngaPetelski commented 3 years ago

Hey Ajay, is it possible to analyze lsm. confocal files in view? LE load experiment does not seem to work. The data is in /Volumes/AG_Galizia/02_EXCHANGE/Inga-Imaging/Ajay Thanks for your support, Inga

ajkswamy commented 3 years ago

Hi Inga. Yes it is possible. Here are some steps I would recommend:

  1. Please create a sample tree according to this guide
  2. For every animal, create a folder within "data" and paste the folder "images" and the MDB file into this newly created folder.
  3. Create a measurement list for the data using this guide. Please note that the value of "LE_loadExp" for Zeiss LSM files is 20.
  4. You are now ready to visualize your data in VIEW and create tapestries, movies or export data to CSV or MAT files!

I will close this issue now, but please feel free to reopen it if you have more questions or issues regarding this!

IngaPetelski commented 3 years ago

Great thanks Ajay it works!