RNASeq Salmon tximport error

RNASeq Salmon tximport error

0

Hi everyone

I am new to this. I am trying to run do egdeR after Salmon quantification and using tximport to move from transcript level to gene level.
My code is:

 names(files) <- paste0("sample", 1:4) 
 print(names)
 file.exists(files)
 tr2gene <- read.csv("tx2gene.csv") 
 txi <- tximport(files, type ="salmon",txIn = TRUE, tx2gene = tr2gene)

I got this error:

Error in tximport(files, type = "salmon", txIn = TRUE, tx2gene = tr2gene) : 
  unused argument (tx2gene = tr2gene)

I tried txOUT = False same error.

I checked tr2gene, it is read correctly and exists. Also checked files:

>     [1] "sample1.s_1.stress.quant.sf"   "sample2.s_1.stress.quant.sf"  
>     [3] "sample3.s_1.wildtype.quant.sf" "sample4.s_1.wildtype.quant.sf"
>     function (x)  .Primitive("names")
>     [1] TRUE TRUE TRUE TRUE

Thank you


Salmon


RNASeq

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