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UmiAwareMarkDuplicatesWithMateCigar: Read "X" does not contain a UMI with the RX attribute.

Hi,

I am starting to work with Illumina targeted panel data from QIAgen that uses UMIs (https://www.qiagen.com/us/shop/sequencing/qiaseq-solutions/qiaseq-targeted-dna-panels/#productdetails). I am trying to adapt the Best practices workflow from GATK (https://software.broadinstitute.org/gatk/documentation/article?id=11136) and incorporate the UmiAwareMarkDuplicatesWithMateCigar from picard instead of MarkDuplicates.

However, I am not well aware how treat this kind of data and UmiAwareMarkDuplicatesWithMateCigar throws me this error regarding the UMI tag name. I guess is kind of a naive question but I am not sure how to solve this problem with this kind of data.

Any ideas?
Thanks!

Answers

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