Man pages for sebkopf/isocyclr
Model isotope fractionation in biogeochemical cycles and pathways
| add_component | Create a reaction for a pathway |
| add_component_ | add isotopes to a component |
| add_custom_reaction | Add a custom reaction |
| add_isotope | Add an isotope |
| add_reaction_ | add reaction with standard evaluation |
| add_standard_reaction | Add a standard single fractionation reaction |
| check_model | check if system is ready for model run |
| default_abscissa | calculate default abscissa depending on exising reactions,... |
| default_rxn_name | get default reaction name |
| dir_flux | Calculate forward/reverse flux |
| expand_data_frame | expand data frame utility function to expand data frames with... |
| expand_parameters | expand existing parameter set |
| fractionate | Fractionate a delta value |
| generate_reaction_diagram | plot reaction diagram |
| get_component_matrix | get the component matrix for an isopath |
| get_ode_expression | compile the ODE expression for the isopath |
| get_ode_function | get ode derivative |
| get_ode_matrix | get the ODE |
| get_reaction_component_matrix | get the combined reaction_component_matrix |
| get_reaction_isotope_matrix | get the combined reaction_isotope_matrix |
| get_reaction_matrix | get the reaction matrix for an isopath |
| isocyclr | Model isotope fractionation in biogeochemical cycles and... |
| isopath | Create a pathway for isotope fractionation |
| merge_isopaths | Merge multiple isopaths |
| mutate_parameters | mutate parameters |
| parse_reaction_component | parse reaction component pulls out the stoichiometry and... |
| parse_reaction_equation | parse reaction equation into its components |
| run_model | Run the reaction model |
| run_steady_state | Run model to steady state |
| set_parameters | add parameter data frame to the isopath |
