Hi everyone,

I'm following the pipeline for processing and visualizing data from high throughput cell-based assays directly from "Bioinformatics and Computational Biology Solutions Using R and Bioconductor" (pg. 78). I'm trying to read in the FCS data using their suggested code but keep getting the following error in RStudio:

> mapk <- readCytoSet(path = sampleDir, phenoData = "plateIndex.txt")

then error...

Error in file(filename, open = "rb") : cannot open the connection
In addition: Warning message:
In file(filename, open = "rb") :
  cannot open file '/Library/Frameworks/R.framework/Versions/3.5/Resources/library/facsDorit/extdata/map/060304MAPK controls.A01': No such file or directory

I've checked the path and I can see the files but for some reason this syntax keeps failing? Any suggestions?

Cheers,