The frontline support team will be unavailable to answer questions until May27th 2019. We will be back soon after. Thank you for your patience and we apologize for any inconvenience!

Picard AddOrReplaceReadGroups Error: Read CIGAR M operator maps off end of reference

liuqiliuqi 104 Building, 1# Courtyard, Beichen West Road, Chaoyang District, Beijing, ChinaMember

I have bam files generated by Illumina's CASAVA pipeline, and the reference genome version in the accompanying document is 'NCBI37_UCSC'. when I use GATK RealignerTargetCreator to do Local realignment, I meet a problem --"do not have RG". so I use Picard AddOrReplaceReadGroups to add RG, but I also meet an problem --"Read CIGAR M operator maps off end of reference", how can I resolve it?? thank you very much!

Best Answer


Sign In or Register to comment.