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Appropriate LB parameter replacement (AddOrReplaceReadGroups) if starting with paired fastq files

Greeting All.

I am starting with paired fastq WGS files and cannot obtain information about what library was used for prep. To the best of my knowledge, each file represents a single sample (r1 or r2) and is the result of a single run.

I would like to add the readgroup information (picard AddOrReplaceReadGroups) and am searching for an appropriate library identifier when the original information is gone forever. My question is very similar to https://gatkforums.broadinstitute.org/gatk/discussion/9263/obtaining-read-group-information-from-the-fastq-files -- but not quite...

I could cobble together some items from the fastq headers (e.g., @D00687:89:CBV1EANXX:2:2201:1088:2049 1:N:0:ACTATGCA) but I don't know if that is copacetic. Guidance is appreciated.

Answers

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