| Calling Sequence
| EstimateCodonPAM(dps1,dps2,cms)
|
| Parameters
| | Name | Type | Description |
|
| dps1
| string | First of the aligned sequences. |
| dps2
| string | Second of the aligned sequences. |
| cms
| list(DayMatrix) | array of codon scoring matrices |
|
| Return Type
| [Score, CodonPAM, CodonPAMVariance] |
| Synopsis
| Given two codon-wise aligned DNA sequences, this functions finds the
best-scoring CodonPAM matrix. Anaologous to EstimatePam, it returns a list
containing the score, the CodonPAM estimate and the CodonPAM variance. |
| Examples
| > EstimateCodonPAM(AAACCCGGGTTT,AAACCG___TTT,CMS);
[11.0814, 91, 1653.3145]
|
| See also
| CodonAlign, CodonDynProgStrings, CreateCodonMatrices, EstimatePam, EstimateSynPAM |