Hi everyone, I have a question regarding the use of

picard MarkDuplicates

within

sarek

when using UMIs. When using UMIs (outside sarek in just a regular pipeline), I'm used to just using the

fgbio

workflow, but I have seen in the

sarek

that the pipeline also can include

picard MarkDuplicates

. Is it mandatory to use

fgbio

and

picard MarkDuplicates

to properly manage UMI-based deduplication within

sarek

? Whats the difference in this case between using just

fgbio

or

fgbio + picard MarkDuplicates

? Thanks!

Sarek also uses fgbio for UMIs, and (I am pretty sure that) in this case there will be no (additional) duplicate marking with

MarkDuplicates

-- that would make no sense.