vector< vector<score_struct> > buildScoreMatrix(int, int);
void fillScoreMatrix(vector<vector<score_struct> >&, vector<Sequence*>, int);
- vector<score_struct> extractHighestPath(vector<vector<score_struct> >);
+ vector<trace_struct> extractHighestPath(vector<vector<score_struct> >);
vector<trace_struct> mapTraceRegionsToAlignment(vector<score_struct>, vector<Sequence*>);
string constructChimericSeq(vector<trace_struct>, vector<Sequence*>);
+ string constructAntiChimericSeq(vector<trace_struct>, vector<Sequence*>);
float computePercentID(string, string);
string chimeraMaligner(int, DeCalculator*);
vector<Sequence*> getBlastSeqs(Sequence*, int);