Uses of Class
sbrt.kernel.util.Or

Packages that use Or
sbrt.kernel.fba Provides classes and interfaces for creating objects relevant to Flux Balance Analysis. 
sbrt.shell.mng.fba Provides classes and interfaces for creating Flux Balance Analysis process managers. 
sbrt.shell.text Provides classes and interfaces for defining formats for basic objects. 
sbrt.shell.text.fba Provides classes and interfaces for defining formats for objects relevant to Flux Balance Analysis. 
 

Uses of Or in sbrt.kernel.fba
 

Methods in sbrt.kernel.fba that return Or
 Or<And<java.lang.String>> IrrevRxnFluxome.getCatalystRule(java.lang.String rxnName)
          Returns the boolean logic statement for the catalysts of the reaction with the provided name.
 Or<And<java.lang.String>> IrrevRxnFluxomeV1.getCatalystRule(java.lang.String rxnName)
          Returns the boolean logic statement for the catalysts of the reaction with the provided name.
 

Methods in sbrt.kernel.fba that return types with arguments of type Or
 java.util.Map<java.lang.String,Or<And<java.lang.String>>> IrrevRxnFluxome.getCatalystRules()
          Returns all of the boolean logic statements regarding reaction catalysis.
 java.util.Map<java.lang.String,Or<And<java.lang.String>>> IrrevRxnFluxomeV1.getCatalystRules()
          Returns all of the boolean logic statements regarding reaction catalysis.
 

Constructor parameters in sbrt.kernel.fba with type arguments of type Or
IrrevRxnFluxomeV1(java.util.Map<java.lang.String,ChemRxn> rxns, java.util.Map<java.lang.String,Or<And<java.lang.String>>> catalysts)
          Constructs a new irreversible reaction fluxome from the provided internal and exchange reactions and catalysts.
IrrevRxnFluxomeV1(java.util.Map<java.lang.String,IrrevRxn> internalRxns, java.util.Map<java.lang.String,SourceRxn> sourceRxns, java.util.Map<java.lang.String,SinkRxn> sinkRxns, java.util.Map<java.lang.String,Or<And<java.lang.String>>> catalysts)
          Constructs a new irreversible reaction fluxome from the provided internal and exchange reactions and catalysts.
 

Uses of Or in sbrt.shell.mng.fba
 

Methods in sbrt.shell.mng.fba that return types with arguments of type Or
static java.util.Map<java.lang.String,Or<And<java.lang.String>>> FbaManager.getCatalysts(Fluxome fluxome, java.lang.String fileName)
          Returns the reaction-catalyst associations contained in the file with the provided name.
static java.util.Map<java.lang.String,Or<And<java.lang.String>>> FbaManager.getCatalysts(Fluxome fluxome, java.lang.String fileName, java.io.PrintWriter out)
          Returns the reaction-catalyst associations contained in the file with the provided name.
 

Uses of Or in sbrt.shell.text
 

Methods in sbrt.shell.text that return Or
 Or<And<E>> BoolRelFormatV1.parse(java.lang.String set)
          Parses the provided string and returns its corresponding collection of elements as a LinkedHashSet.
 

Methods in sbrt.shell.text with parameters of type Or
 java.lang.String BoolRelFormatV1.format(Or<And<E>> boolRel)
          Returns a formatted string representation of the provided boolean relationship.
 

Uses of Or in sbrt.shell.text.fba
 

Methods in sbrt.shell.text.fba that return Or
 Or<And<java.lang.String>> PalssonRxnNodeParser.getCatalysts(org.w3c.dom.Node reactionNode, java.lang.String prefix)
          Returns the boolean logic rules for the catalysts of the provided reaction node.
 Or<And<java.lang.String>> BiggRxnNodeParser.getCatalysts(org.w3c.dom.Node reactionNode, java.lang.String prefix)
          Returns the boolean logic rules for the catalysts of the provided reaction node.
 Or<And<java.lang.String>> PalssonRxnNodeParser.getGenes(org.w3c.dom.Node reactionNode)
          Calls PalssonRxnNodeParser.getCatalysts(Node, String) with "GENE_ASSOCIATION:" as the prefix.
 Or<And<java.lang.String>> BiggRxnNodeParser.getGenes(org.w3c.dom.Node reactionNode)
          Calls BiggRxnNodeParser.getCatalysts(Node, String) with "GENE ASSOCIATION:" as the prefix.
 Or<And<java.lang.String>> PalssonRxnNodeParser.getProteins(org.w3c.dom.Node reactionNode)
          Calls PalssonRxnNodeParser.getCatalysts(Node, String) with "PROTEIN_ASSOCIATION:" as the prefix.
 Or<And<java.lang.String>> BiggBracketParserV1.parse(java.lang.String string)
          Parses the provided BiGG style bracketed expression.