- Factorial - Class in mx.unam.iimas.griffin.math
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- Factorial() - Constructor for class mx.unam.iimas.griffin.math.Factorial
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- factorial(int) - Static method in class mx.unam.iimas.griffin.math.Factorial
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Obtains the factorial of the given number
- FALSE - Static variable in class mx.unam.iimas.griffin.logic.BooleanConstant
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False
- FileReader - Class in mx.unam.iimas.griffin.grn.explorer.util
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Reads the contents of text files Contents are transformed to a String
- FileReader(Path) - Constructor for class mx.unam.iimas.griffin.grn.explorer.util.FileReader
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Creates the reader
- FileReader(String) - Constructor for class mx.unam.iimas.griffin.grn.explorer.util.FileReader
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Creates the reader for the specified file
- FileRegExp - Class in mx.unam.iimas.griffin.grn.explorer.io
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- FileRegExp() - Constructor for class mx.unam.iimas.griffin.grn.explorer.io.FileRegExp
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- FileUtil - Class in mx.unam.iimas.griffin.grn.explorer.io
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Basic file utility functions
- FileUtil() - Constructor for class mx.unam.iimas.griffin.grn.explorer.io.FileUtil
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- filter(List<TopologyIterator.PossibleRegulation>) - Method in interface mx.unam.iimas.griffin.grn.explorer.topology.TopologyIteratorFilter
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Filters the provided list of regulations
- findAttractors() - Method in class mx.unam.iimas.griffin.grn.util.DubrovaAttractors
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Returns the set of all attractors (cyclic or not) from the network
- findDependencies(Set<GeneInteraction>) - Static method in class mx.unam.iimas.griffin.grn.code.EncoderUtil
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Finds the dependencies for every gene given a set of interactions
- findEssential(Gene, Set<Gene>, PropositionalModel) - Static method in class mx.unam.iimas.griffin.grn.code.GeneRegulationDeterministicDecoder
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Finds the essential regulators given a model
- findPrimeImplicants(Formula, boolean) - Static method in class mx.unam.iimas.griffin.logic.implicants.PrimeImplicant
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Finds all c-prime implicants for the given formula
- findRegulations(BooleanGeneRegulatoryNetwork) - Static method in class mx.unam.iimas.griffin.grn.explorer.util.GeneRegulationChecker
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Finds regulations present in the network
- FixedPointAttractorEncoder - Class in mx.unam.iimas.griffin.grn.code
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Encoder for steady states or fixed point attractors
- FixedPointAttractorEncoder() - Constructor for class mx.unam.iimas.griffin.grn.code.FixedPointAttractorEncoder
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- Formula - Interface in mx.unam.iimas.griffin.logic
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A tree formula
- FormulaEvaluator - Class in mx.unam.iimas.griffin.logic.util
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Evaluates a tree formula
- FormulaEvaluator() - Constructor for class mx.unam.iimas.griffin.logic.util.FormulaEvaluator
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- FormulaUtil - Class in mx.unam.iimas.griffin.logic.util
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Utilities for formulas
- FormulaUtil() - Constructor for class mx.unam.iimas.griffin.logic.util.FormulaUtil
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- forwardReachableSet(BDD) - Method in class mx.unam.iimas.griffin.grn.util.SteadyStateAnalyzer
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Obtains the forward reachable set for the provided BDD
- fromSymbol(String) - Static method in enum mx.unam.iimas.griffin.grn.GeneRegulation.Type
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Parses type from symbol