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#ifndef CODE_ChimericSegment
#define CODE_ChimericSegment
#include "IncludeDefine.h"
#include "Parameters.h"
#include "Transcript.h"
#include "ParametersChimeric.h"
class ChimericSegment
{//
public:
Parameters &P;
ParametersChimeric &pCh;
Transcript &align; //alignment
uint roS,roE,str; //start/end/strand in original read coordinates
ChimericSegment(Parameters &Pin, Transcript &alignIn); //allocate
bool segmentCheck();//check if chimeric segment is good
private:
};
#endif
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