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Parallelize BAM chunks #36

thejmazz opened this issue Jul 11, 2016 · 1 comment

Parallelize BAM chunks #36

thejmazz opened this issue Jul 11, 2016 · 1 comment


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@thejmazz thejmazz commented Jul 11, 2016

  • parallelization with patches of bam
  • for example, split bam into 20 sections if 20 cores available
  • both options: concatenate vs. run analysis on regions


  • get whole genome reference, produce BAM from it
  • run, in parallel, a task on each chromosome
  • for each chromosome task, after its done do further analysis AND
  • after all chromosomes finish, do something that needs all of them (e.g. GWAS)
@thejmazz thejmazz added this to the v0.3 milestone Jul 11, 2016
@bmpvieira bmpvieira added this to Backlog in Bionode Project Board Mar 29, 2017
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@thejmazz thejmazz commented Jul 20, 2017

@tiagofilipe12 this is related to #66

@tiagofilipe12 tiagofilipe12 added this to Examples in Watermill board Jul 21, 2017
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