Genome Analysis Toolkit

Variant Discovery in High-Throughput Sequencing Data

GATK process banner

Need Help?

Search our documentation

Community Forum

Hi, How can we help?

Developed in the Data Sciences Platform at the Broad Institute, the toolkit offers a wide variety of tools with a primary focus on variant discovery and genotyping. Its powerful processing engine and high-performance computing features make it capable of taking on projects of any size. Learn more

Mutect stats table not found.


1 comment

  • Avatar
    Pamela Bretscher

    Hi Olena Maiakovska,

    The tool is failing with the error: "An index is required but was not found for file drivingVariantFile:/mnt/sds-hd/sd21j005/Manuel/somatic_449_WT_vs_1KO_Pd.vcf.gz." indicating that the tool cannot find a proper index file for this vcf. Can you try running IndexFeatureFile on your input file and then try again?

    Kind regards,


    Comment actions Permalink

Please sign in to leave a comment.

Powered by Zendesk