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DavisLaboratory / standR

Spatial transcriptomics analyses and decoding in R
https://davislaboratory.github.io/standR/
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Normalization method inquiry #36

Closed jheonsuh closed 4 months ago

jheonsuh commented 5 months ago

Hi. I am very at the beginning of analyzing GeoMx data using R.

Although GeoMx plaform provide Q3 normalization method, it is not sufficienct . Therefore, we are trying to normalize our data using StandR packages.

I wonder how can I get a normalized gene count values of each ROIs in StandR package.

I'd like to adjust TMM, or other normalizing method to our initial data using StandR.

How can I do it?

Can you show me any example codes ?

ningbioinfo commented 4 months ago

close as it's a duplicated one.