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#ifndef H_Solo
#define H_Solo
#include "IncludeDefine.h"
#include "ReadAlignChunk.h"
#include "Transcriptome.h"
#include <fstream>
#include "SoloFeature.h"
class Solo {
private:
ReadAlignChunk **RAchunk;
Parameters &P;
Transcriptome &Trans;
public:
ParametersSolo &pSolo;
SoloFeature **soloFeat;
SoloReadBarcode *readBarSum;
Solo(ReadAlignChunk **RAchunk, Parameters &Pin, Transcriptome &inTrans);
Solo(Parameters &Pin, Transcriptome &inTrans);//for soloCellFiltering
void processAndOutput();
};
#endif
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