rsecFluidigm {clusterExperiment} | R Documentation

## Documentation of rsecFluidigm object

### Description

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

### Usage

    makeRsecFluidigmObject(object)

### Arguments

`object` | object given to functions

### Format

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

### Details

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.

### Author(s)

Elizabeth Purdom epurdom@stat.berkeley.edu

### See Also

`fluidigm`.

### Examples

    # 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)

[Package clusterExperiment version 2.10.1 Index]