NanoString Plexset Demultiplexing

[colsen-bu]

Hi! I am working with a NanoString PlexSet data set and I am trying to figure out the best way to demultiplex it to remove some of the samples from the normalization process which I know to contain technical errors. I am not sure about the best way to go about doing this and any insights would be greatly appreciated thanks!

[mcanouil]

Hi,

You could modify the returned object from NACHO::load_rcc().
For example:

library(NACHO)
data(GSE74821) # results from NACHO::load_rcc()
GSE74821[["nacho"]] <- dplyr::filter(
  .data = GSE74821[["nacho"]],
  <some filter of your own making>
)
normalise(GSE74821)

[colsen-bu]

This worked well for me, thank you so much!