rsecFluidigm: Documentation of rsecFluidigm object
In clusterExperiment: Compare Clusterings for Single-Cell Sequencing

Description Usage Arguments Format Details Author(s) See Also Examples

Documentation of the creation of rsecFluidigm, result of RSEC run on fluidigm data for vignette

1	makeRsecFluidigmObject(object)

object

object given to functions

rsecFluidigm is a ClusterExperiment object, the result of running RSEC on fluidigm data described in vignette and available in the scRNAseq package.

The functions makeRsecFluidigmObject and checkRsecFluidigmObject are helper functions whose sole purpose is to create rsecFluidigm and check that the results are the same as expected. makeRsecFluidigmObject also serves as documentation of the specific RSEC call that was made to create the rsecFluidigm object, as well as filtering and normalization of the fluidigm data. The purpose of making them functions is internal, to help more easily mantain and check if changes to the package have affected the results.

Elizabeth Purdom epurdom@stat.berkeley.edu

fluidigm.

# see code used create rsecFluidigm 
# (print out the function)
makeRsecFluidigmObject
#code actualy run to create rsecFluidigm:
## Not run: 
library(clusterExperiment)
data(fluidigmData)
data(fluidigmColData)
se<-SummarizedExperiment(assays=fluidigmData, colData=fluidigmColData)
RNGversion("3.5.0")
rsecFluidigm<-makeRsecFluidigmObject(se)
# Internal function for checking got correct results...
clusterExperiment:::checkRsecFluidigmObject(rsecFluidigm)
usethis::use_data(rsecFluidigm,overwrite=FALSE)

## End(Not run)