SeqShop: Friday - Practicing what we learned, June 2014

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Note: the latest version of this practical is available at: SeqShop: Friday - Practicing what we learned

  • The ones here is the original one from the June workshop (updated to be run from elsewhere)


SeqShop: Calling Your Own Genome, June 2014


Extracting regions from a BAM using a bed file.

  • bamUtil writeRegion


What's involved in the alignment pipeline?

  • AlignmentPipeline.jpg
    • Note: Following slide is a couple years old, so is out of date!

RecabGATK.png

What's involved in the snpcall pipeline?

  • SnpcallPipeline.jpg
    • Clip Overlap


SeqShop: Ancestry On Your Own Genome, June 2014

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