Daniel:Notebook/Haplotyping/SISSORPipeline/2014-12-2

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Revision as of 20:31, 2 December 2014 by >Djacobse (→‎Algorithm Decomposition)
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Analyzing Eric's Algorithm

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Eric's Original Algorithm

The purpose of today is to understand the steps in Eric's algorithm at a high level. I may, in the future, wish to edit the algorithm itself (unlikely) or simply port it to a more friendly analysis pipeline, since the current pipeline requires a decent amount of excel copy/pasting. Ideally, it should be run with a single script.

Algorithm Decomposition

Note: The decomposition uses the same numbering as Eric's original algorithm (i.e. step 1 is my analysis of his step 1)

  1. convert the bam format to sam format
  2. Custom python script