View source: R/NanoStringGeoMxSet-normalize.R
computeNormalizationFactors | R Documentation |
For use with protein data ONLY.
Generate normalization factors for protein data to determine the best normalization method
computeNormalizationFactors(
object,
igg.names = NULL,
hk.names = NULL,
area = NULL,
nuclei = NULL
)
object |
name of the object class to subset
|
igg.names |
names of IgGs, if NULL IgGs will be detected automatically |
hk.names |
names of HK, if NULL HK will be detected automatically |
area |
name of area column in annotation sheet, optional |
nuclei |
name of nuclei column in annotation sheet, optional |
proteinData <- readRDS(file= system.file("extdata","DSP_Proteogenomics_Example_Data",
"proteinData.rds", package = "GeomxTools"))
normfactors <- computeNormalizationFactors(object = proteinData)
normfactors_withAreaNuclei <- computeNormalizationFactors(object = proteinData,
area = "AOI.Size.um2", nuclei = "Nuclei.Counts")
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