MoleculeAwareScoringInterface.php
A substitution scoring that knows which molecules it makes sense for Freely inspired by BioPHP's project biophp.org Created 9 October 2026 Last modified 9 October 2026
Table of Contents
Interfaces
- MoleculeAwareScoringInterface
- Interface MoleculeAwareScoringInterface - implemented by a scoring that only means something for some molecules (PAM250 for proteins, the IUPAC nucleotide scoring for DNA and RNA). The aligners refuse a sequence it does not support, instead of scoring A, C, G and T as alanine, cysteine, glycine and threonine. A scoring that does not implement it is taken to suit any molecule. Kept apart from SubstitutionScoringInterface, so that interface keeps its single method.