fnAdjacentRateModifier
| gainFactor : | Real (pass by const reference) |
| Multiplicative factor (r' = r * e^{ n_1 * f }) for characters in context set | |
| Default : 0 | |
| lossFactor : | Real (pass by const reference) |
| Multiplicative factor (r' = r * e^{ n_0 * f }) for characters in context set | |
| Default : 0 | |
| width : | Natural (pass by const reference) |
| Width of context-dependence window | |
| Default : 1 | |
| matrix : | RealPos[][] (pass by const reference) |
| Weighted character adjacency matrix. | |
| Default : NULL | |
| numStates : | Natural (pass by const reference) |
| Number of states | |
| numChars : | Natural (pass by const reference) |
| Number of characters |