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

ASEReadCounter output wrong number of coverage


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    Ricky Magner


    Do you think you can provide an example for debugging purposes, of one line from the VCF and one line from the BAM file that contribute in an unexpected manner towards the count from ASEReadCounter that you found when looking in IGV?



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