| align(const char s1n[], const char s1str[], const char s2n[], const char s2str[]) | dyaln | |
| allocateMem() | dyaln | [private] |
| distrib_file1 | dyaln | [private] |
| distrib_file2 | dyaln | [private] |
| dyaln() | dyaln | |
| freeTrace() | dyaln | [inline] |
| initParameter() | dyaln | [private] |
| io | dyaln | [private] |
| isSimple(float &ms) const | dyaln | |
| outputAln(FILE *ou=stdout) | dyaln | |
| outputTab(ostream &os) | dyaln | |
| outputTabPos(ostream &os) | dyaln | |
| results | dyaln | [private] |
| scoring | dyaln | [private] |
| seq1 | dyaln | [private] |
| seq2 | dyaln | [private] |
| setcsub(int cs) | dyaln | [inline] |
| setGapCost(int alpha, int beta) | dyaln | |
| setMatrix(char m[]) | dyaln | [inline] |
| setNaligns(int n) | dyaln | [inline] |
| setup() | dyaln | |
| sortedFreq1 | dyaln | [private] |
| sortedFreq2 | dyaln | [private] |
| ~dyaln() | dyaln |
1.5.6