[ensembl-dev] CADD_RAW is SNV

Linan, Margaret margaret.linan at mssm.edu
Tue Apr 7 21:55:34 BST 2020

Hi -

I am trying to use vep in tab delimited mode. But no matter what I do, I keep seeing SNV in the CADD_RAW column.

Here is my command:
./vep -i ./project_data/top200k.vcf --tab --assembly GRCh38 --cache --offline --dir_plugins /root/.vep/Plugins --plugin CADD,./project_data/whole_genome_SNVs_in
clAnno.tsv.gz,./project_data/InDels_inclAnno.tsv.gz -o annotations.vcf --everything --variant_class --sift b --polyphen b --ccds --uniprot --hgvs --symbol --num
bers --domains --regulatory --canonical --protein --biotype --uniprot --tsl --appris --gene_phenotype --af --af_1kg --af_esp --af_gnomad --max_af --pubmed --var
iant_class -mane

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