A B C D E F G H I K L M N O P Q R S T U V _
All Classes All Packages

## F

FATTY_ACID - biotransformer.biomolecule.StructuralChemicalCategory.SCCategoryName
FATTY_ACID - biotransformer.utils.ChemicalClassFinder.ChemicalClassName
FATTY_ACID_DEGRADATION - biotransformer.transformation.MetabolicPathway.MPathwayName
FATTY_ACID_ELONGATION - biotransformer.transformation.MetabolicPathway.MPathwayName
FeatureGenerator - Class in biotransformer.utils
FeatureGenerator() - Constructor for class biotransformer.utils.FeatureGenerator
FileUtilities - Class in biotransformer.utils
FileUtilities() - Constructor for class biotransformer.utils.FileUtilities
filter() - Method in class biotransformer.utils.ErdbTask
filterEnzymesAndReactions() - Method in class biotransformer.transformation.MetabolicPathway
filterReactions(ArrayList<MetabolicReaction>) - Method in class biotransformer.transformation.MReactionsFilter
filterReactions(ArrayList<MetabolicReaction>, LinkedHashMap<MRPatterns.ReactionName, MRPatterns.ReactionName[]>) - Static method in class biotransformer.transformation.MReactionsFilter
filterReactions(LinkedHashMap<MRPatterns.ReactionName, MetabolicReaction>) - Method in class biotransformer.transformation.MReactionsFilter
filterReactions(LinkedHashMap<MRPatterns.ReactionName, MetabolicReaction>, LinkedHashMap<MRPatterns.ReactionName, MRPatterns.ReactionName[]>) - Static method in class biotransformer.transformation.MReactionsFilter
filterReactionsLSM(LinkedHashMap<String, MetabolicReaction>) - Method in class biotransformer.transformation.MReactionsFilter
findAllAncestors(String, LinkedHashMap<String, ArrayList<String>>) - Method in class biotransformer.utils.BioTransformerDBBuilder
findAllEnvMicroMetabolites(IAtomContainer, ArrayList<String>, double, int, boolean, MetaboliteFinder.FinderOption) - Method in class biotransformer.utils.MetaboliteFinder
findAllEnvMicroMetabolites(IAtomContainer, ArrayList<String>, double, int, boolean, String, MetaboliteFinder.FinderOption) - Method in class biotransformer.utils.MetaboliteFinder
findAllEnvMicroMetabolitesToCSV(IAtomContainer, ArrayList<String>, double, int, boolean, String, MetaboliteFinder.FinderOption) - Method in class biotransformer.utils.MetaboliteFinder
findAllHumanMetabolites(IAtomContainer, ArrayList<String>, double, int, boolean, MetaboliteFinder.FinderOption) - Method in class biotransformer.utils.MetaboliteFinder
findAllHumanMetabolites(IAtomContainer, ArrayList<String>, double, int, boolean, String, MetaboliteFinder.FinderOption) - Method in class biotransformer.utils.MetaboliteFinder
findAllHumanMetabolitesToCSV(IAtomContainer, ArrayList<String>, double, int, boolean, String, MetaboliteFinder.FinderOption) - Method in class biotransformer.utils.MetaboliteFinder
findAllMatchingStructures(String, IAtomContainer) - Method in class biotransformer.utils.ChemStructureExplorer
  Given a molecule M and a SMARTS expression S, return all the substructures of M that match the expression S
findAllOccurences(String, IAtomContainer) - Static method in class biotransformer.utils.ChemStructureExplorer
  Given a molecule A and a SMARTS expression S, list all occurrences of S in A.
findChemicalClass(IAtomContainer) - Static method in class biotransformer.utils.ChemicalClassFinder
findPathway(IAtomContainer, IAtomContainer, LinkedHashMap<String, IAtomContainerSet>, LinkedHashMap<String, IAtomContainer>, boolean) - Method in class biotransformer.utils.MetaboliteFinder
findSuperbioMetabolites(IAtomContainer, ArrayList<String>, double, boolean, MetaboliteFinder.FinderOption) - Method in class biotransformer.utils.MetaboliteFinder
findSuperbioMetabolites(IAtomContainer, ArrayList<String>, double, boolean, String, MetaboliteFinder.FinderOption) - Method in class biotransformer.utils.MetaboliteFinder
findSuperbioMetabolitesToCSV(IAtomContainer, ArrayList<String>, double, boolean, String, MetaboliteFinder.FinderOption) - Method in class biotransformer.utils.MetaboliteFinder
FLAVAN_3_OL_C_RING_FISSION_PATTERN1 - biotransformer.transformation.MRPatterns.ReactionName
FLAVAN_3_OL_C_RING_FISSION_PATTERN2 - biotransformer.transformation.MRPatterns.ReactionName
FLAVANON_3_OL_C_RING_FISSION - biotransformer.transformation.MRPatterns.ReactionName
FLAVANONE_C_RING_FISSION - biotransformer.transformation.MRPatterns.ReactionName
  Blaut, M.
FLAVONE_3P_O_METHYLATION - biotransformer.transformation.MRPatterns.ReactionName
FLAVONOID_C_GLYCOSIDASE - biotransformer.biomolecule.Enzyme.EnzymeName
FLAVONOID_C_RING_REDUCTION - biotransformer.transformation.MRPatterns.ReactionName
FLAVONOL_3_O_DEGLUCOSYLATION - biotransformer.transformation.MRPatterns.ReactionName
FLAVONOL_3_O_GLUCOSYLATION - biotransformer.transformation.MRPatterns.ReactionName
FLAVONOL_3O_BETA_GLUCOSIDE_O_MANNOSYL_TRANSFER - biotransformer.transformation.MRPatterns.ReactionName
FLAVONOL_3O_BETA_GLUCOSIDE_O_MANNOSYL_TRANSFER_REVERSE - biotransformer.transformation.MRPatterns.ReactionName
FLAVONOL_3O_GLUCOSIDE_GLUCOSYLATION - biotransformer.transformation.MRPatterns.ReactionName
FLAVONOL_3O_GLUCOSIDE_L_DERHAMNOSYLATION - biotransformer.transformation.MRPatterns.ReactionName
FLAVONOL_3O_GLUCOSIDE_L_RHAMNOSYLATION - biotransformer.transformation.MRPatterns.ReactionName
FLAVONOL_3O_GLUCOSYL_12_GLUCOSIDE_DEGLUCOSYLATION - biotransformer.transformation.MRPatterns.ReactionName
FLAVONOL_3O_GLUCOSYL_12_GLUCOSYL_12_GLUCOSYL_DEGLUCOSYLATION - biotransformer.transformation.MRPatterns.ReactionName
FLAVONOL_3O_GLUCOSYL_12_GLUCOSYL_GLUCOSYLATION - biotransformer.transformation.MRPatterns.ReactionName
FLAVYLIUM_HYDRATION - biotransformer.transformation.MRPatterns.ReactionName
FMO1 - biotransformer.biomolecule.Enzyme.EnzymeName
FMO2 - biotransformer.biomolecule.Enzyme.EnzymeName
FMO3 - biotransformer.biomolecule.Enzyme.EnzymeName
FORMATION_OF_IMINIUM_IN_PYRROLIDINE_RING - biotransformer.transformation.MRPatterns.ReactionName
FORMATION_OF_IMMINIUM_ION_FROM_DI_N_SUBSTITUTED_PIPERAZINE - biotransformer.transformation.MRPatterns.ReactionName
FORMATION_OF_IMMINIUM_ION_FROM_N_SUBSTITUTED_PIPERIDINE - biotransformer.transformation.MRPatterns.ReactionName
FORMATION_OF_PYRIDINIUM_FROM_4_SUBSTITUTED_PIPERIDINE - biotransformer.transformation.MRPatterns.ReactionName
FORMULA - biotransformer.utils.MetaboliteFinder.FinderOption
FURAN_23_EPOXIDATION - biotransformer.transformation.MRPatterns.ReactionName
FURAN_23_EPOXIDATION_2 - biotransformer.transformation.MRPatterns.ReactionName
FURAN_EPOXIDATION - biotransformer.transformation.MRPatterns.ReactionName

A B C D E F G H I K L M N O P Q R S T U V _
All Classes All Packages