4.1. Units of WC models¶
Table 4.1 lists the units of each quantity in a WC model.
These units facilitate composition of multiple models of multiple cellular processes. In particular, these units represent dFBA models in volume (l) concentrations rather than in mass (gDCW) concentrations because this makes dFBA compatible with SSA and ODE models that are typically described in volume concentrations.
Quantity |
Attributes |
Dimensions |
Units |
Units class |
---|---|---|---|---|
Time |
|
time |
s |
|
Compartment density |
wc_lang.core.Compartment.density wc_lang.core.Compartment.density_units |
mass / volume |
g l^-1 |
|
Compartment volume |
wc_lang.core.Compartment.volume wc_lang.core.Compartment.volume_units |
volume |
l^-1 |
|
Distribution of initial
concentration of a
species at the beginning
of the cell cycle
|
wc_lang.core.Concentration.distribution wc_lang.core.Concentration.mean wc_lang.core.Concentration.std wc_lang.core.Concentration.units |
molecule,
molecule volume-1
|
molecule,
M
|
|
Species count |
|
molecule |
molecule |
|
Observable count |
wc_lang.core.ObservableExpression.expression wc_lang.core.Observable.units |
molecule |
molecule |
|
Observable coefficient |
|
dimensionless |
none |
|
Reaction participant |
|
dimensionless |
none |
|
Reaction rate |
wc_lang.core.RateLawExpression.expression wc_lang.core.RateLaw.units wc_lang.core.DfbaObjective.reaction_rate_units wc_lang.core.DfbaObjReaction.units |
time-1 |
s-1, |
|
Reaction flux bounds |
wc_lang.core.Reaction.flux_min wc_lang.core.Reaction.flux_max wc_lang.core.Reaction.flux_bound_units |
volume-1 time-1 |
M s^-1 |
|
dFBA objective |
wc_lang.core.DfbaObjectiveExpresssion.expression wc_lang.core.DfbaObjective.units |
time-1 |
s^-1 |
|
dFBA objective coefficient |
wc_lang.core.DfbaObjectiveExpresssion.expression wc_lang.core.DfbaObjective.coefficient_units |
time |
s |
|
dFBA objective species |
wc_lang.core.DfbaObjSpecies.value wc_lang.core.DfbaObjSpecies.units |
volume^-1 time^-1,
gDCW^-1 time^-1
|
M s^-1
mol gDCW^-1 s^-1
|
|
Function |
wc_lang.core.FunctionExpression.expression wc_lang.core.Function.units |
various |
various |
|
Parameter |
wc_lang.core.Parameter.value wc_lang.core.Parameter.units |
various |
various |
|
Stop condition |
wc_lang.core.StopCondition.expression wc_lang.core.StopCondition.units |
dimensionless |
none |
|