The Frontline Support team will be offline February 18 for President's Day but will be back February 19th. Thank you for your patience as we get to all of your questions!
BQSR and -L
I'm working with whole genome data (in a non-model with no databases of known sites), and I'm wondered if using -L to speed things up by running each chromosome in parallel creates a problem? Specifically, by reducing the amount of data the recalibration is based off?