Genome Analysis Toolkit

Variant Discovery in High-Throughput Sequencing Data

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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

Error in merged bam files


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    Genevieve Brandt (she/her)

    Hi Priyadarshini Thirunavukkarasu,

    I think for this issue you will want to go back and re-do the steps that caused this issue to make sure there were not problems during those steps where mates were being incorrectly handled. I don't think FixMateInformation will even work at this stage because the mates are not matched correctly.



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