Hi,
I have to align PE reads from the E.coli DH10B sequencing. I am thinking of using BWA sampe. Could E.coli being a circular genome cause any alignment issues? If yes, then I don't see an option to for aln/sampe that could handle this. So is anybody aware of doing PE E.coli data alignment using BWA? Also, are there any better alignment tools for E.coli PE data?
Any help regarding this would be appreciated.
Thanks,
Praful
I have to align PE reads from the E.coli DH10B sequencing. I am thinking of using BWA sampe. Could E.coli being a circular genome cause any alignment issues? If yes, then I don't see an option to for aln/sampe that could handle this. So is anybody aware of doing PE E.coli data alignment using BWA? Also, are there any better alignment tools for E.coli PE data?
Any help regarding this would be appreciated.
Thanks,
Praful
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