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

Required arguement in MergeBamAlignment


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    Gökalp Çelik

    Hi Shvartsman

    Looks like arguments page for the tool is missing another required input which is the aligned bam file. This tool takes one unaligned and one aligned bam file to merge as one bam file with added tags and marks from the unaligned bam file. 

    We will fix this issue and reflect the required parameter Alignment Bam file. 


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