To celebrate the release of GATK 4.0, we are giving away free credits for running the GATK4 Best Practices pipelines in FireCloud, our secure online analysis portal. It’s first come first serve, so sign up now to claim your free credits worth $250. Sponsored by Google Cloud. Learn more at

Individual or population level variant calling?

nb82nb82 United StatesMember

I have a non-technical question: What is the advantage of performing a population-level variant calling (samples for all sub-species concurrently) as opposed to individual level (one sample at a time)? What additional info is provided in the former case?
Also, I have to do this for ~3000 samples. Is it feasible to perform population level variant calling for all 3000 concurrently? Will it take 3000-times longer than a single-sample?
Thanks in advance,

Sign In or Register to comment.