If you happen to see a question you know the answer to, please do chime in and help your fellow community members. We appreciate your help!
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.
Running preprocessing steps on WGS and WES
I would like to run GATK on my sequence. The input to the process is FASTQ files and the output should be a clean BAM ready for variant calling. Could you please let me know what pipelines are available and what are the differences between them? The image for the process is attached.