I am trying to run DESeq2 in R 3.6.2, the R version recommended for Mac OS 10.14. When I try to run the function newCountDataSet I get "package ‘newCountDataSet’ is not available (for R version 3.6.2)" Can I find a substitute? Do I return to an older version of R?
You shouldn't be so mysterious as to what you did. Show code. What you have said amounts to 'I did something and I got this error', which isn't much to go on.
However, the warning you are seeing comes from BiocManager, and indicates that you aren't actually trying to use DESeq2, but are instead trying to install something called newCountDataSet?
> install("newCountDataSet")
Bioconductor version 3.10 (BiocManager 1.30.10), R 3.6.1 (2019-07-05)
Installing package(s) 'newCountDataSet'
Warning message:
package 'newCountDataSet' is not available (for R version 3.6.1)
Which doesn't seem to be a thing? What exactly are you trying to do?
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version 2.3.6
You are trying to use a function, and it's telling you that you lack a package of the same name? I wonder if your command line is messed up. But if you don't tell us your command line, no one can help you.