eps too high / uncontrolled

Nanostring-Biostats / CosMx-Analysis-Scratch-Space

This repository is an exploratory resource to accelerate opensource analysis of CosMx® Spatial Molecular Imager (SMI) data. Contained here are and writeups and vignettes addressing a variety of topics discussed when analyzing single-cell spatial data.

https://nanostring-biostats.github.io/CosMx-Analysis-Scratch-Space/

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eps too high / uncontrolled #116

Closed patrickjdanaher closed 1 week ago

patrickjdanaher commented 2 weeks ago

...and that makes some genes have 0 perturbation

Possible; solutions:

make eps default to varying with expression level?
use log(eps + ) rather than pmax!

patrickjdanaher commented 1 week ago

whoops, wrong repo