1.5 Create MSnSet

The create_msnset function can be used to easily create an MSnSet from the cross-tab and samples tables. More details about MSnSets will be added in a separate section at a later date. For now, read the documentation with help("MSnSet") or ?MSnSet.

# Create MSnSet
m1 <- create_msnset(crosstab = crosstab, samples = samples)
m1

## MSnSet (storageMode: lockedEnvironment)
## assayData: 5173 features, 18 samples 
##   element names: exprs 
## protocolData: none
## phenoData
##   sampleNames: S1_1 S1_2 ... S2_9 (18 total)
##   varLabels: ReporterName PlexID ... MeasurementName (5 total)
##   varMetadata: labelDescription
## featureData: none
## experimentData: use 'experimentData(object)'
## Annotation:  
## - - - Processing information - - -
##  MSnbase version: 2.22.0

# Save global MSnSet
save(m1, file = "data/global_msnset.RData", compress = TRUE)