1. I am trying to add gene names to my result table from DESeq2 using the mapIds functions as outlined in the tutorial for differential analysis of RNA-seq data. However I get the message:
" could not find funtion "mapIds""
How do I add gene names to my table?
2. Is there a way to add the gene names to the dds generated using the DESeq2 function:
dds = DESeqDataSetFromHTSeqCount
thanks in advance for your time
You either need to load the AnnotationDbi package, or more likely, need to upgrade your R/Bioconductor installation to the most recent version. Without having the output from sessionInfo() it is impossible for us to say which.
The mapIds() function was introduced (IIRC), last release, and you have one from two releases ago. You should upgrade to R-3.2.1 and the current release of Bioconductor.
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version 2.3.6
This is the version of R I am using:
R version 3.1.2 (2014-10-31) -- "Pumpkin Helmet"
Copyright (C) 2014 The R Foundation for Statistical Computing
Platform: x86_64-apple-darwin13.4.0 (64-bit)
thank you so much,
Maria