Test-drive the GATK tools and Best Practices pipelines on Terra
Check out this blog post to learn how you can get started with GATK and try out the pipelines in preconfigured workspaces (with a user-friendly interface!) without having to install anything.
overlapping read pairs in GATK 220.127.116.11
I came across this post regarding overlapping read pair: https://gatkforums.broadinstitute.org/gatk/discussion/1745/does-unifiedgenotyper-count-overlapping-paired-end-reads-as-two-separate-reads
I could not interpret the last comment by @ebanks. Could you explain me in terms of the new Haplotypecaller?