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    Reproducing Yang et al. - Chr1 Joint Genotyping

    March 9, 2017

    Reproducing Yang et al - HaplotypeCaller

    March 8, 2017

    Reproducing Yang et al - BQSR

    March 6, 2017

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    Recent Posts

    Reproducing Yang et. al - Aligning

    February 28, 2017

    I'm working on reproducing results from a paper using my methods.

    Make bwa index of Nipponbare v7:

    Turns out there are some fasta formatting mistakes in the nipponbare ref...

    Correct them:

     Prep the file for GATK:

     I processed the raw reads for alignment:

    And aligned (o...

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