File: TranscriptExpression.h

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#ifndef TRANSCRIPTEXPRESSION_H
#define TRANSCRIPTEXPRESSION_H
#include<vector>
#include<string>
#include<stdint.h>

using namespace std;

enum TE_FileType{ SAMPLER_MEANS, MEAN_VARIANCE , M_ALPHAS, GUESS };

struct trExpInfoT{
   double exp,var;
   int_least32_t id;
   bool operator< (const trExpInfoT& d2) const{
      return exp<d2.exp;
   }
};

class TranscriptExpression{
   private:
      long M;
      bool logged;
      vector<trExpInfoT> trs;
      TE_FileType guessFileType(const string &fileName);

   public:
      TranscriptExpression();
      TranscriptExpression(const string &fileName, TE_FileType fileType = SAMPLER_MEANS);
      bool readExpression(const string &fileName, TE_FileType fileType = SAMPLER_MEANS);
      void doSort(bool reverse = false);
      long getM(){return M;}
      bool isLogged(){return logged;}
      double exp(long tr){return trs[tr].exp;}
      double var(long tr){return trs[tr].var;}
      long id(long tr){return trs[tr].id;}
};

#endif