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

How to Fix the follow ValidateSamFile error ?


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    Genevieve Brandt (she/her)

    Hi Luis Enrique Romero Cruz,

    It depends on what the cause of the issue is, you can go back to previous steps of your pipeline and determine when the issue came up and fix it there. It looks like this error message is an unaligned mate, so possibly there were issues with your alignment step.



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