Annovar file to maf file conversion

Question

[ganeshram]

Hi everyone,

Can anyone help me with troubleshooting annovar to Maf file generation?

I am using this command in R but I am getting error.

annovarToMaf(annovar, Center = NULL, refBuild = "hg19", tsbCol = NULL,
  table = "refGene", basename = NULL, header = FALSE, sep = "\t",
  MAFobj = FALSE)

[Asaf]

And the error is...

[ganeshram]

the error I am facing is this.

annovarToMaf("Desktop/Galaxy/PY-3_indel_myanno_hg38_multianno.txt", Center = NULL, refBuild = "hg19", tsbCol = NULL, table = "refGene", basename = NULL, header = FALSE, sep = "\t", MAFobj = FALSE) Error in annovarToMaf("Desktop/Galaxy/PY-3_indel_myanno_hg38_multianno.txt", : unused argument (header = FALSE)

[Asaf]

Weird. Can you try and run maftools::annovarToMaf() to make sure you're using the right function and nothing ran over its declaration? Also check that you have the latest version.