Cell volumes for MPOA reproduction

[paulmorio]

Dear Dr. Miller (@bmill3r ),

Sorry to bother you, I am trying to run through the pseudo synthetic ST data (MPOA) analysis using STDeconvolve MPOA tutorial, but cannot find the cell volume data for animal FN7, datasets 171021_FN7_2_M22_M26 and 171023_FN7_1_M22_M26 in order to get discrete transcipt counts for each of the genes in order to continue with the LDA modelling. Could you perhaps share them?

Best regards,
paulmorio

[bmill3r]

Hi @paulmorio,

Sorry for the delay! The files you want should be available here as part of an RData file.

This contains counts_, annot.table_, majorCellTypes, and neuronalCellsubtypes after the preprocessing and filtering. I will need to check the original publication for the cell volume information but this should be what you need to start generating the simulated pixels.

Hope this helps!
Brendan

[paulmorio]

Excellent, thank you very much!

[xieaq]

Hi Dr. Miller (@bmill3r )
The link does not exist. Could you perhaps share them again?
Thanks!

Best,
Aoqi

[bmill3r]

Hi Dr. Miller (@bmill3r ) The link does not exist. Could you perhaps share them again? Thanks!

Best, Aoqi

Link should be fixed:
https://drive.google.com/drive/folders/11ip1VreNdD2uBvWgIpMQZ9h00xz7FFKC?usp=sharing

[xieaq]

Hi Dr. Miller (@bmill3r ) The link does not exist. Could you perhaps share them again? Thanks!
Best, Aoqi

Link should be fixed: https://drive.google.com/drive/folders/11ip1VreNdD2uBvWgIpMQZ9h00xz7FFKC?usp=sharing

Got it! Thanks a lot!