fluidigmData: Subset of fluidigm data

In epurdom/clusterExperiment: Compare Clusterings for Single-Cell Sequencing

Subset of fluidigm data

Description

Subset of fluidigm data

Format

subset of fluidigm data used in vignette package.

Details

fluidigmData and fluidigmColData are portions of the fluidigm data distributed in the package scRNAseq package. We have subsetted to only the cells sequenced under high depth, and limited our selves to only two of the four gene estimates provided by scRNAseq ("tophat_counts" and "rsem_tpm").

Author(s)

Elizabeth Purdom [e-mail]

See Also

fluidigm

Examples

#code used to create objects:
## Not run: 
library(scRNAseq)
if(packageVersion("scRNAseq")>="1.11.0") fluidigm <- ReprocessedFluidigmData() else data(fluidigm)
fluidSubset<- fluidigm[,colData(fluidigm)[,"Coverage_Type"]=="High"]
fluidigmData<-assays(fluidSubset)[c("tophat_counts","rsem_tpm")]
fluidigmColData<-as.data.frame(colData(fluidSubset))
usethis::use_data(fluidigmData, fluidigmColData, overwrite=FALSE)

## End(Not run)

epurdom/clusterExperiment documentation built on Oct. 12, 2022, 5:27 a.m.