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XQ Tag #52
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It is set when calculated MAPQ is over 60.
Cheers.
Roman.
…On Fri, 31 Mar 2023, 14:17 Mateusz Marynowski, ***@***.***> wrote:
I saw an XQ tag in the resulting bam, and I can't find what it is
anywhere. Could you explain what an XQ tag is?
Because of this tag, the RevertSam tool from gatk does not work and I get
this error:
htsjdk.samtools.SAMException: Value for tag XQ is not a String: class
java.lang.Integer
Could this tag change the data type from int to string?
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Hello @MateuszMarynowski , were you able to resolve the issue with RevertSam by any chance? I'd appreciate any pointers. Thank you! |
I have the same issue. Would appreciate if you have found a solution to this issue with |
I ended up running RevertSam with the |
Thanks! I ended up using another alignment workflow. |
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I saw an XQ tag in the resulting bam, and I can't find what it is anywhere. Could you explain what an XQ tag is?
Because of this tag, the
RevertSam
tool from gatk does not work and I get this error:htsjdk.samtools.SAMException: Value for tag XQ is not a String: class java.lang.Integer
Could this tag change the data type from int to string?
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