TranscriptExon.h

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#ifndef TRANSCRIPTEXON_H
#define TRANSCRIPTEXON_H

#include <string>
#include <vector>
#include "Interval.h"

class TranscriptExon {
   public:
      TranscriptExon() : exons() { }
      TranscriptExon(const string& exstr);
      friend ostream& operator<<(ostream &ous, const TranscriptExon &exn);

   protected: 
      vector<Interval> exons;
};

class CDSExon : public TranscriptExon {
   public:
      CDSExon() : TranscriptExon() { }
      CDSExon(const string& exstr) : TranscriptExon(exstr) { }
      vector<pair<int,int> > intronloc() const;
      vector<int> intronlocCDS() const;
};

#endif