Filtering data from snpEFF annotated file
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6 weeks ago
maajid • 0

Hello all ,

I have annotated multi sample vcf file using snpEff . How can I filter exonic variants in the separate file and intronic as well as other UTRs in separate file .I need separate table for exonic variants for each sample and the aminoacid change assosiated with the variant .Which command can I use to separate out exonic variants .Also some info column containing annotation information show "NO START CODON". I have opened the annoattion file but I am not able to relate the variation with each sample .What can be a simple way to view the annotated vcf file from snpEff.

Filtering snpEff annotation • 209 views
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duplicate of your previous question : filtering exonic variants from the annoated file

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Sir , here I just want to filter out exonic variants .

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