Hi,
We are planning to test around 5000 WGS samples for Joint Variant calling and would like to follow as mentioned here
https://software.broadinstitute.org/gatk/documentation/article?id=10061
One of the caveats mentioned as "For very large numbers of samples, there are some batching options."
Can you please let me know about how batching option works if I have to analyze 5000 samples? I can't find any reference manual too. Thanks.
Regards
Lavanya