The BioCRNpyler Library

Components

Components

biocrnpyler.components.basic.DNA
biocrnpyler.components.basic.RNA
biocrnpyler.components.basic.Protein
biocrnpyler.components.basic.Metabolite
biocrnpyler.components.basic.ChemicalComplex
biocrnpyler.components.basic.Enzyme
biocrnpyler.components.combinatorial_complex.CombinatorialComplex
biocrnpyler.components.combinatorial_conformation.CombinatorialConformation
biocrnpyler.components.combinatorial_conformation.CombinatorialConformationPromoter
biocrnpyler.components.component_enumerator.ComponentEnumerator
biocrnpyler.components.component_enumerator.LocalComponentEnumerator
biocrnpyler.components.component_enumerator.GlobalComponentEnumerator
biocrnpyler.components.construct_explorer.ConstructExplorer
biocrnpyler.components.construct_explorer.TxExplorer
biocrnpyler.components.construct_explorer.TlExplorer
biocrnpyler.components.integrase_enumerator.Polymer_transformation
biocrnpyler.components.integrase_enumerator.IntegraseRule
biocrnpyler.components.integrase_enumerator.Integrase_Enumerator
biocrnpyler.components.membrane.DiffusibleMolecule
biocrnpyler.components.membrane.IntegralMembraneProtein
biocrnpyler.components.membrane.MembraneChannel
biocrnpyler.components.membrane.MembranePump
biocrnpyler.components.membrane.MembraneSensor

DNA: Assembly

biocrnpyler.components.dna.assembly.DNAassembly

DNA: Cds

biocrnpyler.components.dna.cds.CDS

DNA: Construct

biocrnpyler.components.dna.construct.Construct
biocrnpyler.components.dna.construct.DNA_construct
biocrnpyler.components.dna.construct.RNA_construct
biocrnpyler.components.dna.construct.DNA_part

DNA: Misc

biocrnpyler.components.dna.misc.DNABindingSite
biocrnpyler.components.dna.misc.IntegraseSite
biocrnpyler.components.dna.misc.UserDefined
biocrnpyler.components.dna.misc.Origin
biocrnpyler.components.dna.misc.Operator

DNA: Promoter

biocrnpyler.components.dna.promoter.Promoter
biocrnpyler.components.dna.promoter.RegulatedPromoter
biocrnpyler.components.dna.promoter.ActivatablePromoter
biocrnpyler.components.dna.promoter.RepressiblePromoter
biocrnpyler.components.dna.promoter.CombinatorialPromoter

DNA: Rbs

biocrnpyler.components.dna.rbs.RBS

DNA: Terminator

biocrnpyler.components.dna.terminator.Terminator

Mechanisms

Binding

biocrnpyler.mechanisms.binding.One_Step_Cooperative_Binding
biocrnpyler.mechanisms.binding.Two_Step_Cooperative_Binding
biocrnpyler.mechanisms.binding.Combinatorial_Cooperative_Binding
biocrnpyler.mechanisms.binding.One_Step_Binding

Conformation

biocrnpyler.mechanisms.conformation.One_Step_Reversible_Conformation_Change

Enzyme

biocrnpyler.mechanisms.enzyme.BasicCatalysis
biocrnpyler.mechanisms.enzyme.BasicProduction
biocrnpyler.mechanisms.enzyme.MichaelisMenten
biocrnpyler.mechanisms.enzyme.MichaelisMentenReversible
biocrnpyler.mechanisms.enzyme.MichaelisMentenCopy

Global Mechanisms

biocrnpyler.mechanisms.global_mechanisms.GlobalMechanism
biocrnpyler.mechanisms.global_mechanisms.Dilution
biocrnpyler.mechanisms.global_mechanisms.AnitDilutionConstiutiveCreation
biocrnpyler.mechanisms.global_mechanisms.Degredation_mRNA_MM
biocrnpyler.mechanisms.global_mechanisms.Deg_Tagged_Degredation

Integrase

biocrnpyler.mechanisms.integrase.BasicIntegration
biocrnpyler.mechanisms.integrase.EnzymeIntegration

Metabolite

biocrnpyler.mechanisms.metabolite.OneStepPathway

Signaling

biocrnpyler.mechanisms.signaling.Membrane_Signaling_Pathway_MM

Transport

biocrnpyler.mechanisms.transport.Simple_Diffusion
biocrnpyler.mechanisms.transport.Membrane_Protein_Integration
biocrnpyler.mechanisms.transport.Simple_Transport
biocrnpyler.mechanisms.transport.Facilitated_Transport_MM
biocrnpyler.mechanisms.transport.Primary_Active_Transport_MM

Txtl

biocrnpyler.mechanisms.txtl.OneStepGeneExpression
biocrnpyler.mechanisms.txtl.SimpleTranscription
biocrnpyler.mechanisms.txtl.SimpleTranslation
biocrnpyler.mechanisms.txtl.PositiveHillTranscription
biocrnpyler.mechanisms.txtl.NegativeHillTranscription
biocrnpyler.mechanisms.txtl.Transcription_MM
biocrnpyler.mechanisms.txtl.Translation_MM
biocrnpyler.mechanisms.txtl.Energy_Transcription_MM
biocrnpyler.mechanisms.txtl.Energy_Translation_MM
biocrnpyler.mechanisms.txtl.multi_tx
biocrnpyler.mechanisms.txtl.multi_tl

Mixtures

Cell

biocrnpyler.mixtures.cell.ExpressionDilutionMixture
biocrnpyler.mixtures.cell.SimpleTxTlDilutionMixture
biocrnpyler.mixtures.cell.TxTlDilutionMixture

Extract

biocrnpyler.mixtures.extract.ExpressionExtract
biocrnpyler.mixtures.extract.SimpleTxTlExtract
biocrnpyler.mixtures.extract.TxTlExtract
biocrnpyler.mixtures.extract.EnergyTxTlExtract