Examples of numMismatches()

Examples of abra.CompareToReference.numMismatches()

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    c2r.init(reference);
   
    int i=0;
   
    for (SAMRecord read : reader) {
      int numMismatches = c2r.numMismatches(read);
      int numIndelBases = getNumIndelBases(read);
      int editDistance = numMismatches + numIndelBases;
     
      read.setAttribute("NM", editDistance);
     
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