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amplab / snap

Scalable Nucleotide Alignment Program -- a fast and accurate read aligner for high-throughput sequencing data
https://www.microsoft.com/en-us/research/project/snap/
Apache License 2.0
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BAM record error: found spliced alignment without XS attribute #53

Closed yanzhangusa closed 9 years ago

yanzhangusa commented 9 years ago

When I used bam file which generated by snap for cufflinks, I got the following error: BAM record error: found spliced alignment without XS attribute. I did some research and found that was because of there is no strand tag in that bam file. Which parameter that I need to add in snap to make snap generate them? I knew tophat and star could generate it but BWA could not.