Wed Jun 22, 2016 3:47 pm by mccars
Hello!
I’d like to ask about data pre-processing prior to using PhenoGraph.
In Levine et al (2015), the authors use a second normalisation where for each surface marker the maximum intensity observed is determined as the 99.5th percentile of the healthy bone marrow cells; and then data from all samples is divided by these maximum values.
Is there a Bioconductor package, or similar, for this normalisation?
If not, can you recommend a method for determining the maximum intensity for each surface marker of these samples?
And then, a way to divide the data from all samples by this maximum value?
I'm afraid I don't come from a bioinfomatics background, but I've recently been getting to grips with R and matlab.
Thanks! Sheila.