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## R

reactionsBTMRID - Variable in class biotransformer.transformation.MetabolicReaction
reactionsByGroups - Variable in class biotransformer.btransformers.Biotransformer
reactionsHash - Variable in class biotransformer.btransformers.Biotransformer
readFile(String) - Method in class biotransformer.utils.FeatureGenerator
  This functions reads molecules from a chemical file and preprocess the molecules.
reduceSet(IAtomContainerSet) - Method in class biotransformer.btransformers.Phase2BTransformer
REDUCTION_OF_ALDEHYDES_TO_ALCOHOL - biotransformer.transformation.MRPatterns.ReactionName
REDUCTION_OF_ALPHA_BETA_CARBON_DOUBLE_BOND_ADJACENT_TO_EWG_PATTERN1 - biotransformer.transformation.MRPatterns.ReactionName
REDUCTION_OF_ALPHA_BETA_CARBON_DOUBLE_BOND_ADJACENT_TO_EWG_PATTERN2 - biotransformer.transformation.MRPatterns.ReactionName
REDUCTION_OF_ALPHA_BETA_CARBON_DOUBLE_BOND_ADJACENT_TO_EWG_PATTERN3 - biotransformer.transformation.MRPatterns.ReactionName
REDUCTION_OF_ALPHA_BETA_UNSATURATED_COMPOUNDS_PATTERN1 - biotransformer.transformation.MRPatterns.ReactionName
REDUCTION_OF_ALPHA_BETA_UNSATURATED_COMPOUNDS_PATTERN2 - biotransformer.transformation.MRPatterns.ReactionName
REDUCTION_OF_ALPHA_BETA_UNSATURATED_COMPOUNDS_PATTERN3 - biotransformer.transformation.MRPatterns.ReactionName
REDUCTION_OF_AMIDOXIMES - biotransformer.transformation.MRPatterns.ReactionName
REDUCTION_OF_ARYLHYDROXYLAMINE_TO_ARYLAMINE_PATTERN1 - biotransformer.transformation.MRPatterns.ReactionName
REDUCTION_OF_ARYLHYDROXYLAMINE_TO_ARYLAMINE_PATTERN2 - biotransformer.transformation.MRPatterns.ReactionName
REDUCTION_OF_ARYLHYDROXYLAMINE_TO_ARYLAMINE_PATTERN3 - biotransformer.transformation.MRPatterns.ReactionName
REDUCTION_OF_ARYLHYDROXYLAMINE_TO_ARYLAMINE_PATTERN4 - biotransformer.transformation.MRPatterns.ReactionName
REDUCTION_OF_AZO_GROUPS - biotransformer.transformation.MRPatterns.ReactionName
REDUCTION_OF_AZOBENZENE - biotransformer.transformation.MRPatterns.ReactionName
REDUCTION_OF_DISULFIDE - biotransformer.transformation.MRPatterns.ReactionName
REDUCTION_OF_HALOTRIFLUOROETHANE_PATTERN1 - biotransformer.transformation.MRPatterns.ReactionName
REDUCTION_OF_HALOTRIFLUOROETHANE_PATTERN2 - biotransformer.transformation.MRPatterns.ReactionName
REDUCTION_OF_HALOTRIFLUOROETHANE_PATTERN3 - biotransformer.transformation.MRPatterns.ReactionName
REDUCTION_OF_KETONE_TO_ALCOHOL - biotransformer.transformation.MRPatterns.ReactionName
REDUCTION_OF_NITRO_TO_AMINE - biotransformer.transformation.MRPatterns.ReactionName
REDUCTION_OF_NITRO_TO_HYDROXYLAMINE - biotransformer.transformation.MRPatterns.ReactionName
REDUCTION_OF_NITRO_TO_NITROSO - biotransformer.transformation.MRPatterns.ReactionName
REDUCTION_OF_NITROBENZE_TO_AMINOBENZENE - biotransformer.transformation.MRPatterns.ReactionName
REDUCTION_OF_NITROIMINES - biotransformer.transformation.MRPatterns.ReactionName
REDUCTION_OF_TERMINAL_ALIPHATIC_TRIHALIDES - biotransformer.transformation.MRPatterns.ReactionName
REDUCTION_OF_VINYL_HYDROXYBENZENE - biotransformer.transformation.MRPatterns.ReactionName
REDUCTIVE_DEHALOGENATION_OF_ARYL_HALIDE - biotransformer.transformation.MRPatterns.ReactionName
REDUCTIVE_LACTONIZATION_OF_QUINONE_PROPIONIC_ACID_PATTERN1 - biotransformer.transformation.MRPatterns.ReactionName
REDUCTIVE_LACTONIZATION_OF_QUINONE_PROPIONIC_ACID_PATTERN2 - biotransformer.transformation.MRPatterns.ReactionName
removeDuplicateStrings(ArrayList<String>) - Static method in class biotransformer.utils.Utilities
RESORCINOL_M_DEHYDROXYLATION - biotransformer.transformation.MRPatterns.ReactionName
RETINOL_O_FATTY_ACYLATION - biotransformer.transformation.MRPatterns.ReactionName
returnFirstCleanSynonym(String[]) - Static method in class biotransformer.utils.Utilities
returnFirstCleanSynonym(ArrayList<String>) - Static method in class biotransformer.utils.Utilities
RIBOSYLPYRIMIDINE_RIBOHYDROLYSIS - biotransformer.transformation.MRPatterns.ReactionName
RING_OPENING_OF_DI_N_SUBSTITUTED_PIPERAZINE_PATTERN1 - biotransformer.transformation.MRPatterns.ReactionName
RING_OPENING_OF_DI_N_SUBSTITUTED_PIPERAZINE_PATTERN2 - biotransformer.transformation.MRPatterns.ReactionName
RING_OPENING_OF_MONO_N_SUBSTITUTED_PIPERAZINE - biotransformer.transformation.MRPatterns.ReactionName
RING_OPENING_OF_N_SUBSTITUTED_MORPHOLINE - biotransformer.transformation.MRPatterns.ReactionName
RING_OPENING_OF_N_SUBSTITUTED_PIPERIDINE_RING - biotransformer.transformation.MRPatterns.ReactionName
ringCount(IAtomContainer) - Static method in class biotransformer.utils.ChemStructureExplorer

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