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M
- M_HYDROXYLATION_OF_MONOSUBSTITUTED_BENZENE - biotransformer.transformation.MRPatterns.ReactionName
- main(String[]) - Static method in class biotransformer.biosystems.BioSystem
- main(String[]) - Static method in class biotransformer.transformation.MetabolicReaction
- main(String[]) - Static method in class biotransformer.transformation.MRPatterns
- main(String[]) - Static method in class biotransformer.utils.BioTransformerDBBuilder
- main(String[]) - Static method in class biotransformer.utils.ChemicalClassFinder
- main(String[]) - Static method in class biotransformer.utils.ChemSearcher
- main(String[]) - Static method in class biotransformer.utils.CompoundDictionary
- main(String[]) - Static method in class biotransformer.utils.ErdbTask
- main(String[]) - Static method in class executable.BiotransformerExecutable
- mapper - Variable in class biotransformer.btransformers.Biotransformer
- MASS - biotransformer.utils.MetaboliteFinder.FinderOption
- MASSFORMULA - biotransformer.utils.MetaboliteFinder.FinderOption
- MEDIUM_CHAIN_ACYL_COA_DEHYDROGENATION - biotransformer.transformation.MRPatterns.ReactionName
- MetabolicPathway - Class in biotransformer.transformation
- MetabolicPathway(MetabolicPathway.MPathwayName, BioSystem) - Constructor for class biotransformer.transformation.MetabolicPathway
- MetabolicPathway.MPathwayName - Enum in biotransformer.transformation
- MetabolicReaction - Class in biotransformer.transformation
-
The first reactantsSMARTS is the main one, for which indices might be retrieved to apply position-specific transformations.
- MetabolicReaction(MRPatterns.ReactionName) - Constructor for class biotransformer.transformation.MetabolicReaction
- MetabolicReaction(MRPatterns.ReactionName, SMIRKSManager) - Constructor for class biotransformer.transformation.MetabolicReaction
- MetabolicReaction(MRPatterns.ReactionName, String, String, String, ArrayList<String>, ArrayList<String>, SMIRKSManager) - Constructor for class biotransformer.transformation.MetabolicReaction
- MetabolicReaction(MRPatterns.ReactionName, String, String, ArrayList<String>, ArrayList<String>, SMIRKSManager) - Constructor for class biotransformer.transformation.MetabolicReaction
- MetabolicReaction(MRPatterns.ReactionName, String, ArrayList<String>, ArrayList<String>, SMIRKSManager) - Constructor for class biotransformer.transformation.MetabolicReaction
- MetabolicReaction(String) - Constructor for class biotransformer.transformation.MetabolicReaction
- MetabolicReaction(String, SMIRKSManager) - Constructor for class biotransformer.transformation.MetabolicReaction
- MetaboliteFinder - Class in biotransformer.utils
- MetaboliteFinder() - Constructor for class biotransformer.utils.MetaboliteFinder
- MetaboliteFinder.FinderOption - Enum in biotransformer.utils
- metabolizeWithEnzyme(IAtomContainer, Enzyme.EnzymeName, boolean, boolean, double) - Method in class biotransformer.btransformers.Biotransformer
- metabolizeWithEnzyme(IAtomContainer, Enzyme, boolean, boolean, double) - Method in class biotransformer.btransformers.Biotransformer
- metabolizeWithEnzyme(IAtomContainer, Enzyme, boolean, boolean, int, double) - Method in class biotransformer.btransformers.Biotransformer
- metabolizeWithEnzyme(IAtomContainerSet, Enzyme, boolean, boolean, double) - Method in class biotransformer.btransformers.Biotransformer
- metabolizeWithEnzymes(IAtomContainer, ArrayList<Enzyme>, boolean, boolean, Double) - Method in class biotransformer.btransformers.Biotransformer
- metabolizeWithEnzymes(IAtomContainerSet, ArrayList<Enzyme>, boolean, boolean, double) - Method in class biotransformer.btransformers.Biotransformer
- metabolizeWithEnzymesBreadthFirst(IAtomContainer, ArrayList<Enzyme>, boolean, boolean, int, Double) - Method in class biotransformer.btransformers.Biotransformer
- metabolizeWithEnzymesBreadthFirst(IAtomContainerSet, ArrayList<Enzyme>, boolean, boolean, int, Double) - Method in class biotransformer.btransformers.Biotransformer
- metabolizeWithEnzymesDephtFirst(IAtomContainer, ArrayList<Enzyme>, boolean, boolean, int, Double) - Method in class biotransformer.btransformers.Biotransformer
- METHYLARSONITE_O_METHYLATION - biotransformer.transformation.MRPatterns.ReactionName
- METHYLENE_HYDROXYLATION - biotransformer.transformation.MRPatterns.ReactionName
- METHYLENEDIOXY_RING_OPENING - biotransformer.transformation.MRPatterns.ReactionName
- MICROBIAL_POLYPHENOL_METABOLISM - biotransformer.transformation.MetabolicPathway.MPathwayName
- MONOLYSOCARDIOLIPIN_ACYLATION - biotransformer.transformation.MRPatterns.ReactionName
- MReactionSets - Class in biotransformer.transformation
- MReactionSets() - Constructor for class biotransformer.transformation.MReactionSets
- MReactionsFilter - Class in biotransformer.transformation
- MReactionsFilter() - Constructor for class biotransformer.transformation.MReactionsFilter
- MReactionsFilter(BioSystem.BioSystemName) - Constructor for class biotransformer.transformation.MReactionsFilter
- mrFilter - Variable in class biotransformer.biosystems.BioSystem
- MRPatterns - Class in biotransformer.transformation
- MRPatterns() - Constructor for class biotransformer.transformation.MRPatterns
- MRPatterns.ReactionName - Enum in biotransformer.transformation
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