error in tximport command
when I am typing command : txi <- tximport(samples, type = "stringtie", tx2gene = tx2gene)
I am getting this error:
Error in match.arg(type, c("none", "kallisto", "salmon", "sailfish", "rsem")) :
'arg' should be one of “none”, “kallisto”, “salmon”, “sailfish”, “rsem”
I am using t_data.ctab files from STRINGTIE output.
Please help
1 answer
You are probably using an old version that did not yet support stringtie import. I suggest you update tximport and try again. stringtie support was added with version 1.8.0, see https://bioconductor.org/packages/release/bioc/news/tximport/NEWS
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