Hi all,
I am using Mutect2 to call variants from exome seq samples (tumor/normal pair). I amusing the -L flag to call only in the targeted exome and not the whole genome. Yet, when it runs it seems to run on the whole genome rather than just in the targeted region. It also seems to be taking a very long time ~50 hrs, according to the output as it is going. Has anyone run into this problem before?
I am using Mutect2 to call variants from exome seq samples (tumor/normal pair). I amusing the -L flag to call only in the targeted exome and not the whole genome. Yet, when it runs it seems to run on the whole genome rather than just in the targeted region. It also seems to be taking a very long time ~50 hrs, according to the output as it is going. Has anyone run into this problem before?