Error in importing Salmon quantifications into R with tximport
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June. ▴ 10
@june-23879
Last seen 14 months ago

Hi,

Following this tutorial (https://www.bioconductor.org/help/course-materials/2019/CSAMA/materials/labs/lab-03-rnaseq/rnaseqGene_CSAMA2019.html) for tximport, running the following code gives me error:

txi <- tximport(files, type="salmon", tx2gene=tx2gene)

**reading in files with read_tsv
1 Error in readBin(bootCon, "integer", n = expected.n) : 
  invalid 'n' argument**

I don't know if it is because of my R version? I am using R version 3.5.3, preinstalled on our server.

Please help me. Thanks!

deseq2 tximport • 168 views
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@mikelove
Last seen 14 hours ago
United States

I’m not sure either, but could you use the latest version of Bioconductor and the current workflow here:

https://bioconductor.org/packages/rnaseqGene

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