Question: STAR/StringTie compatibility on tag HI in the BAM alignment file
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23 months ago by
Megan40 wrote:

Hi, I am trying to do transcript reconstruction and quantification using StringTie on BAMs generated by STAR. According to, modifying the tag HI in the BAM alignment file to start at 0 (as previously required with STAR produced alignment files) is no longer needed starting at v1.1.0 release 10/19/2015. I came across this after having generated BAMs using STAR with --outSAMattrIHstart 0 option. And StringTie finished successfully using the BAMs generated by STAR. I'm really concerned if there are any underlying mistakes doing so. Thanks!

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ADD COMMENTlink written 23 months ago by Megan40
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