how to get ENSG id using annovar annotation

[stroke1989]

Hi, I used annovar to annoate my WES data sucessfully, but the output did not generate ENSG id, instead, it generated ENST id. How can I got ENSG id. Hope your response! Appreciate!

[kaichop]

You can follow instructions here https://annovar.openbioinformatics.org/en/latest/user-guide/gene/#switching-to-gencodeccds-gene-annotation Ensembl is replaced by GENCODE now.

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