RNASeq Salmon tximport error
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
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