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List Kaviar

Command examples:

atav.sh --list-kaviar --variant PATH_TO_YOUR_VARIANT_FILE --out PATH_TO_OUTPUT_DIR

Command options:

--list-kaviar: trigger list kaviar function.

--variant: use a variant id file (one id per line) or a variant id list (comma delimited)

id format: chr-pos-ref-alt

--max-kaviar-allele-count: specify a maximum kaviar allele count. (include NA)

--max-kaviar-maf: specify a maximum kaviar minor allele frequency. (include NA)

Output:

kaviar.csv
  • Kaviar MAF
  • Kaviar Allele Count
  • Kaviar Allele Number

For additional details, please check Kaviar