packageVersion("tximport") [1] '1.6.0'
I'm following this guide and when testing with a single table from stringtie, I get the following error:
txi <- tximport(files, type = "stringtie", tx2gene = tx2gene) Error in match.arg(type, c("none", "salmon", "sailfish", "kallisto", "rsem")) : 'arg' should be one of “none”, “salmon”, “sailfish”, “kallisto”, “rsem”
After checking the github repo, the NEWS
file states that stringtie support was added in 1.8
, which isn't available in bioconductor and the development version is
1.7.13
. It would be useful if that guide adds some info regarding the tximport
version used to carry out all those analyses. I can try installing from github, but i wanted to know what is the preferred way to get the last stable version of this package.
Cheers
Which version of R and Bioconductor are you running? You seem to be using the Bioconductor version 3.4