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Downstream analysis in R

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Jens Preußner edited this page Apr 9, 2018 · 1 revision
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Downstream analysis

Results from sc-preprocess can be read easily into R and analyzed using a variety of existing tools/pipelines.

Minimal setup

For a minimal setup only the Bioconductor package SingleCellExperiment is needed to correctly read in the resulting file form sc-preprocess:

## try http:// if https:// URLs are not supported
source("https://bioconductor.org/biocLite.R")
biocLite("SingleCellExperiment")

Data loading

library(SingleCellExperiment)
load("RData/scData.Rdata")