I try to install DESeq2 using bellow code in R 1.4.1717
BiocManager::install("DESeq2")
Got this error
Warning message:
package(s) not installed when version(s) same as current; use force = TRUE
to re-install: 'DESeq2'
Any time you get a message that starts with 'Warning', you can be sure that it isn't an error. An error starts with the word 'Error', as one might expect.
In addition, the warning you got seems to be pretty clear? It says you already have DESeq2 installed, and that the version you have installed is the same as what you are trying to install, and if you really want to re-install you can use force = TRUE.
Can you say what you found confusing about that warning? Perhaps it could be worded differently?
Thanks but when I want to use library(DESeq2) get this message Loading required package: GenomicRanges Loading required package: GenomeInfoDb Error: package or namespace load failed for ‘GenomeInfoDb’ in loadNamespace(i, c(lib.loc, .libPaths()), versionCheck = vI[[i]]): there is no package called ‘GenomeInfoDbData’ Error: package ‘GenomeInfoDb’ could not be loaded
The error is fired when the GenomeInfoDb package is trying to load, which appears to be a dependency of GenomicRanges, which is DESeq2 may be using (through SummarizedExperiment, maybe?)
Anyway, try reinstalling the GenomeInfoDb package and reloading DESeq2 again to see if that does it.
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version 2.3.6
R 1.4? Do you mean R 4.1?
Probably 1.4.1717 is referring to the latest RStudio IDE version released which is 1.4.1717 not to the version of R.