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.
Input files known and reference have incompatible contigs
I have a question. I use the GATK RealignerTargetCreator, I have this error message.
ERROR MESSAGE: Input files known and reference have incompatible contigs: Found contigs with the same name but different lengths:
ERROR contig known = chrM / 16569
ERROR contig reference = chrM / 16571.
there are many questions about this, but there isn't definite answer.