- weights(String, boolean) - Method in class massbalance.MetabolicGraph
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Prints the edge weights of the graph into a tab-separated file.
- write(String, boolean) - Method in class massbalance.MetabolicGraph
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Writes the graph to a tab- and delimiter-separated file readable by createGraph.
- write2(String, boolean) - Method in class massbalance.MetabolicGraph
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Writes the graph to an alternative tab- and delimiter-separated file format.
- writeBalance(String, boolean) - Method in class massbalance.MetabolicGraph
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Writes the number of balanced reactions and the number of reactions which are fully annotated,
i.e., of which all substrates and products have an annotated mass.
- writeBioCycWeights(String, String) - Static method in class massbalance.Utilities
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Prints the molecular weights of all compounds in the given biocyc directory.
- writeClasses(HashMap<ArrayList<Integer>, EquivalenceClass>, String, String, String) - Static method in class massbalance.Equivalence
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Output equivalence classes as table.
- writeCompartments(String) - Static method in class massbalance.Utilities
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Prints all compartments in the given network.
- writeLines(String, int, int) - Static method in class massbalance.Utilities
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Prints the lines in the given from-to range of the given inputFile.