- vector< vector<int> > windows; //windows[0] is the vector of window breaks for querySeqs[0]
- vector<int> windowSizes; //windowSizes[0] is the size of the windows for querySeqs[0]
- vector< map<int, int> > trim; //trim[0] is the map containing the starting and ending positions for querySeqs[0] set of seqs
- vector< vector<SeqDist> > closest; //closest[0] is a vector of sequence at are closest to queryseqs[0]...
- vector< vector<float> > averageRef; //averageRef[0] is the average distance at each window for the references for querySeqs[0]
- vector< vector<float> > averageQuery; //averageQuery[0] is the average distance at each winow for the query for querySeqs[0]
- vector< vector<float> > sumRef; //sumRef[0] is the sum of distances at each window for the references for querySeqs[0]
- vector< vector<float> > sumSquaredRef; //sumSquaredRef[0] is the sum of squared distances at each window for the references for querySeqs[0]
- vector< vector<float> > sumQuery; //sumQuery[0] is the sum of distances at each window for the comparison of query to references for querySeqs[0]
- vector< vector<float> > sumSquaredQuery; //sumSquaredQuery[0] is the sum of squared distances at each window for the comparison of query to references for querySeqs[0]
- vector< vector<float> > varRef; //varRef[0] is the variance among references seqs at each window for querySeqs[0]
- vector< vector<float> > varQuery; //varQuery[0] is the variance among references and querySeqs[0] at each window
- vector< vector<float> > sdRef; //sdRef[0] is the standard deviation of references seqs at each window for querySeqs[0]
- vector< vector<float> > sdQuery; //sdQuery[0] is the standard deviation of references and querySeqs[0] at each window
- vector< vector<float> > anova; //anova[0] is the vector of anova scores for each window for querySeqs[0]
- vector<int> refCombo; //refCombo[0] is the number of reference sequences combinations for querySeqs[0]
- vector< vector<bool> > isChimericConfidence; //isChimericConfidence[0] indicates whether querySeqs[0] is chimeric at a given window according to the confidence limits
- vector< vector<bool> > isChimericTStudent; //isChimericConfidence[0] indicates whether querySeqs[0] is chimeric at a given window according to the confidence limits
- vector< vector<bool> > isChimericANOVA; //isChimericConfidence[0] indicates whether querySeqs[0] is chimeric at a given window according to the confidence limits
+ vector<int> windows; //windows is the vector of window breaks for query
+ int windowSizes; //windowSizes is the size of the windows for query
+ map<int, int> trim; //trim is the map containing the starting and ending positions for query
+ vector<SeqDist> closest; //closest is a vector of sequence at are closest to query
+ vector<float> averageRef; //averageRef is the average distance at each window for the references for query
+ vector<float> averageQuery; //averageQuery is the average distance at each winow for the query for query
+ vector<float> sumRef; //sumRef is the sum of distances at each window for the references for query
+ vector<float> sumSquaredRef; //sumSquaredRef is the sum of squared distances at each window for the references for query
+ vector<float> sumQuery; //sumQuery is the sum of distances at each window for the comparison of query to references for query
+ vector<float> sumSquaredQuery; //sumSquaredQuery is the sum of squared distances at each window for the comparison of query to references for query
+ vector<float> varRef; //varRef is the variance among references seqs at each window for query
+ vector<float> varQuery; //varQuery is the variance among references and query at each window
+ vector<float> sdRef; //sdRef is the standard deviation of references seqs at each window for query
+ vector<float> sdQuery; //sdQuery is the standard deviation of references and query at each window
+ vector<float> anova; //anova is the vector of anova scores for each window for query
+ int refCombo; //refCombo is the number of reference sequences combinations for query
+ vector<bool> isChimericConfidence; //isChimericConfidence indicates whether query is chimeric at a given window according to the confidence limits
+ vector<bool> isChimericTStudent; //isChimericConfidence indicates whether query is chimeric at a given window according to the confidence limits
+ vector<bool> isChimericANOVA; //isChimericConfidence indicates whether query is chimeric at a given window according to the confidence limits