src/toolkit/bamtools_filter.h

   1 // ***************************************************************************
   2 // bamtools_filter.h (c) 2010 Derek Barnett, Erik Garrison
   3 // Marth Lab, Department of Biology, Boston College
   4 // All rights reserved.
   5 // ---------------------------------------------------------------------------
   6 // Last modified: 28 August 2010
   7 // ---------------------------------------------------------------------------
   8 // Filters a single BAM file (or filters multiple BAM files and merges)
   9 // according to some user-specified criteria.
  10 // ***************************************************************************
  11
  12 #ifndef BAMTOOLS_FILTER_H
  13 #define BAMTOOLS_FILTER_H
  14
  15 #include "bamtools_tool.h"
  16
  17 namespace BamTools {
  18
  19 class FilterTool : public AbstractTool {
  20
  21     public:
  22         FilterTool(void);
  23         ~FilterTool(void);
  24
  25     public:
  26         int Help(void);
  27         int Run(int argc, char* argv[]);
  28
  29     private:
  30         struct FilterSettings;
  31         FilterSettings* m_settings;
  32
  33         struct FilterToolPrivate;
  34         FilterToolPrivate* m_impl;
  35 };
  36
  37 } // namespace BamTools
  38
  39 #endif // BAMTOOLS_FILTER_H