galaxyproject / galaxyproject/tools-devteam
Readgroup assigment in bwa, bwa-mem, and bowtie2 and possible other tools does not set SM tag
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bug
- Dominant language
- Python
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Description
Setting read groups (when “automatically assign ID” is selected) does **not** assign `SM` tag, which is a requirement. This causes downstream issues with Picard etc.
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