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  1. Barna Package
  2. BARNA-111

check parameter PCR_PROBABILITY

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    • Status: Open
    • Major
    • Resolution: Unresolved
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    Description

      For the simulation of the Illumina Body Map, I get from ~5M reads to ~50M fragments, without filtering and PCR. PCR with a certain PCR_PROBABILITY (p) parameter then leads to a number of fragments :

      p=0.1, n= 3,908M
      p=0.05, n= 1,330M
      p=0.0001, n= 1,342M
      p=0.00001, n= 1,299M

      To me the value obtained for n seems a bit high overall, and also there is no notable difference between p=0.05 and p=0.00001.

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            micha Micha Sammeth
            micha Micha Sammeth
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