Package documentation¶
Following is the documentation for the different modules of the package. The main module of the package is the stonpy.core module; the other modules offer functions and classes used by this main module.
- stonpy.core module
- stonpy.conversion module
- stonpy.completion module
- stonpy.model module
OntologyAFOntologyEROntologyPDSTONEnumSTONEnum.ABSOLUTE_INHIBITIONSTONEnum.ABSOLUTE_INHIBITION_SHORTCUTSTONEnum.ABSOLUTE_STIMULATIONSTONEnum.ABSOLUTE_STIMULATION_SHORTCUTSTONEnum.ACTIVITYSTONEnum.ANDSTONEnum.ANNOTATIONSTONEnum.ARCSTONEnum.ARCGROUPSTONEnum.ASSIGNMENTSTONEnum.ASSIGNMENT_SHORTCUTSTONEnum.ASSOCIATIONSTONEnum.AUXILLIARY_UNITSTONEnum.BBOXSTONEnum.BIOLOGICAL_ACTIVITYSTONEnum.CARDINALITYSTONEnum.CARDINALITY_PROPSTONEnum.CATALYSISSTONEnum.CATALYSIS_SHORTCUTSTONEnum.CLASSSTONEnum.CLONESTONEnum.CLONE_LABELSTONEnum.COLLECTION_NSSTONEnum.COMPARTMENTSTONEnum.COMPARTMENT_ORDERSTONEnum.COMPLEXSTONEnum.COMPLEX_MULTIMERSTONEnum.COMPLEX_MULTIMER_SUBUNITSTONEnum.COMPLEX_SUBUNITSTONEnum.CONSUMPTIONSTONEnum.CONSUMPTION_SHORTCUTSTONEnum.DELAYSTONEnum.DISSOCIATIONSTONEnum.ENDSTONEnum.ENTITYSTONEnum.ENTITY_NODESTONEnum.EPNSTONEnum.EQUIVALENCESTONEnum.EQUIVALENCE_ARCSTONEnum.EQUIVALENCE_ARC_SHORTCUTSTONEnum.EXISTENCESTONEnum.EXTENSIONSTONEnum.FLUX_ARCSTONEnum.GENERIC_PROCESSSTONEnum.GLYPHSTONEnum.HSTONEnum.HAS_ANNOTATIONSTONEnum.HAS_ARCSTONEnum.HAS_ARCGROUPSTONEnum.HAS_BBOXSTONEnum.HAS_CARDINALITYSTONEnum.HAS_ENDSTONEnum.HAS_EXISTENCESTONEnum.HAS_GLYPHSTONEnum.HAS_LABELSTONEnum.HAS_LOCATIONSTONEnum.HAS_NEXTSTONEnum.HAS_OUTCOMESTONEnum.HAS_PORTSTONEnum.HAS_RESOURCESTONEnum.HAS_SOURCESTONEnum.HAS_STARTSTONEnum.HAS_STATE_VARIABLESTONEnum.HAS_SUBUNITSTONEnum.HAS_TARGETSTONEnum.HAS_TERMINALSTONEnum.HAS_UNIT_OF_INFORMATIONSTONEnum.HAS_VALUESTONEnum.IDSTONEnum.IMPLICIT_XORSTONEnum.INFLUENCESTONEnum.INHIBITIONSTONEnum.INHIBITION_SHORTCUTSTONEnum.INTERACTIONSTONEnum.INTERACTION_ARCGROUPSTONEnum.INTERACTION_GLYPHSTONEnum.INTERACTION_SHORTCUTSTONEnum.INTERACTORSTONEnum.IS_IN_COMPARTMENTSTONEnum.LABELSTONEnum.LABEL_PROPSTONEnum.LANGUAGESTONEnum.LOCATIONSTONEnum.LOGICAL_OPERATORSTONEnum.LOGIC_ARCSTONEnum.LOGIC_ARC_SHORTCUTSTONEnum.MACROMOLECULESTONEnum.MACROMOLECULE_MULTIMERSTONEnum.MACROMOLECULE_MULTIMER_SUBUNITSTONEnum.MACROMOLECULE_SUBUNITSTONEnum.MAPSTONEnum.MAP_IDSTONEnum.MODULATIONSTONEnum.MODULATION_SHORTCUTSTONEnum.MULTIMERSTONEnum.NECESSARY_STIMULATIONSTONEnum.NECESSARY_STIMULATION_SHORTCUTSTONEnum.NEGATIVE_INFLUENCESTONEnum.NEGATIVE_INFLUENCE_SHORTCUTSTONEnum.NEXTSTONEnum.NOTSTONEnum.NOTESSTONEnum.NUCLEIC_ACID_FEATURESTONEnum.NUCLEIC_ACID_FEATURE_MULTIMERSTONEnum.NUCLEIC_ACID_FEATURE_MULTIMER_SUBUNITSTONEnum.NUCLEIC_ACID_FEATURE_SUBUNITSTONEnum.OMITTED_PROCESSSTONEnum.ORSTONEnum.ORDERSTONEnum.ORIENTATIONSTONEnum.OUTCOMESTONEnum.PERTURBING_AGENTSTONEnum.PHENOTYPESTONEnum.PHENOTYPE_SUBUNITSTONEnum.PORTSTONEnum.POSITIVE_INFLUENCESTONEnum.POSITIVE_INFLUENCE_SHORTCUTSTONEnum.PREFIXSTONEnum.PROCESSSTONEnum.PRODUCTIONSTONEnum.PRODUCTION_SHORTCUTSTONEnum.QUALIFIERSTONEnum.QUALIFIER_NSSTONEnum.QUALIFIER_URISTONEnum.RELATIONSHIPSTONEnum.RESOURCESTONEnum.SIMPLE_CHEMICALSTONEnum.SIMPLE_CHEMICAL_MULTIMERSTONEnum.SIMPLE_CHEMICAL_MULTIMER_SUBUNITSTONEnum.SIMPLE_CHEMICAL_SUBUNITSTONEnum.SOURCE_AND_SINKSTONEnum.STARTSTONEnum.STATEMENTSTONEnum.STATE_VARIABLESTONEnum.STIMULATIONSTONEnum.STIMULATION_SHORTCUTSTONEnum.STOICHIOMETRIC_PROCESSSTONEnum.SUBMAPSTONEnum.SUBUNITSTONEnum.TAGSTONEnum.TERMINALSTONEnum.TEXTSTONEnum.UI_TYPESTONEnum.UNCERTAIN_PROCESSSTONEnum.UNIT_OF_INFORMATIONSTONEnum.UNKNOWN_INFLUENCESTONEnum.UNKNOWN_INFLUENCE_SHORTCUTSTONEnum.UNSPECIFIED_ENTITYSTONEnum.UNSPECIFIED_ENTITY_SUBUNITSTONEnum.URISTONEnum.VALUESTONEnum.VARIABLESTONEnum.VARIABLE_VALUESTONEnum.WSTONEnum.XSTONEnum.Y
- stonpy.sbgn module
ArcArcClassArcClass.ABSOLUTE_INHIBITIONArcClass.ABSOLUTE_STIMULATIONArcClass.ASSIGNMENTArcClass.CATALYSISArcClass.CONSUMPTIONArcClass.EQUIVALENCE_ARCArcClass.INHIBITIONArcClass.INTERACTIONArcClass.LOGIC_ARCArcClass.MODULATIONArcClass.NECESSARY_STIMULATIONArcClass.NEGATIVE_INFLUENCEArcClass.POSITIVE_INFLUENCEArcClass.PRODUCTIONArcClass.STIMULATIONArcClass.UNKNOWN_INFLUENCE
ArcPointArcgroupBboxCloneEndGlyphGlyphClassGlyphClass.ANDGlyphClass.ANNOTATIONGlyphClass.ASSOCIATIONGlyphClass.BIOLOGICAL_ACTIVITYGlyphClass.CARDINALITYGlyphClass.COMPARTMENTGlyphClass.COMPLEXGlyphClass.COMPLEX_MULTIMERGlyphClass.DELAYGlyphClass.DISSOCIATIONGlyphClass.ENTITYGlyphClass.EXISTENCEGlyphClass.IMPLICIT_XORGlyphClass.INTERACTIONGlyphClass.LOCATIONGlyphClass.MACROMOLECULEGlyphClass.MACROMOLECULE_MULTIMERGlyphClass.NOTGlyphClass.NUCLEIC_ACID_FEATUREGlyphClass.NUCLEIC_ACID_FEATURE_MULTIMERGlyphClass.OBSERVABLEGlyphClass.OMITTED_PROCESSGlyphClass.ORGlyphClass.OUTCOMEGlyphClass.PERTURBATIONGlyphClass.PERTURBING_AGENTGlyphClass.PHENOTYPEGlyphClass.PROCESSGlyphClass.SIMPLE_CHEMICALGlyphClass.SIMPLE_CHEMICAL_MULTIMERGlyphClass.SOURCE_AND_SINKGlyphClass.STATE_VARIABLEGlyphClass.STOICHIOMETRYGlyphClass.SUBMAPGlyphClass.TAGGlyphClass.TERMINALGlyphClass.UNCERTAIN_PROCESSGlyphClass.UNIT_OF_INFORMATIONGlyphClass.UNSPECIFIED_ENTITYGlyphClass.VARIABLE_VALUE
LabelLanguageMapNextOrientationPointPortStartcast_arc()cast_arcgroup()cast_bbox()cast_clone()cast_end()cast_glyph()cast_label()cast_map()cast_next()cast_point()cast_port()cast_start()read()
- stonpy.utils module