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  • #1

    homopolymer, steps after alignment

    Hello.
    I am implementing my pipeline and I have to start the steps after alignment. I have see on GATK pipeline that I have to do local realignment (indel realignment) but the problem of 454 Roche is the homopolymer, so I would like know if there is an other tool that I have to use.

    Thank you in advance
    Tags: gatk indelrealigner, homopolymer, my pipeline, roche 454
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