This contains an update to the psamm-model primarypairs command that allows for the printing of any reactions in which the compound pair predictions were ambiguous.
This option can be enabled for both methods, MapMaker and FindPrimaryPairs, through the addition of the '--ambiguous' flag onto the command.
The output will contain a list of reactions in which there were multiple possible compound pair predictions. For FindPrimaryPairs these represent cases where there were ties in the scores for multiple compound pairs within a single reactions. For the MapMaker algorithm these represent cases where there were multiple optimal solutions for element transfer detected in the MILP problem.
This contains an update to the psamm-model primarypairs command that allows for the printing of any reactions in which the compound pair predictions were ambiguous. This option can be enabled for both methods, MapMaker and FindPrimaryPairs, through the addition of the '--ambiguous' flag onto the command. The output will contain a list of reactions in which there were multiple possible compound pair predictions. For FindPrimaryPairs these represent cases where there were ties in the scores for multiple compound pairs within a single reactions. For the MapMaker algorithm these represent cases where there were multiple optimal solutions for element transfer detected in the MILP problem.