It looks like you're new here. If you want to get involved, click one of these buttons!
My variant calling seems very slow. What do you think?
We have 10 BAM files, each about 2.5GB, covering a targetted region of about 15MB.
I am using the HaplotypeCaller with 8 threads (-nct 8) and it is taking 31 hours.
When we start whole genome sequencing this will be impossible!
Any ideas on how to speed things up? Is this a normal speed?