loica.operators.source

Module Contents

Classes

Source

A class that represents a DNA fragment that encode a genetic operator.

class Source(output, rate, uri=None, sbol_comp=None, color='blue', name=None)

Bases: Operator

A class that represents a DNA fragment that encode a genetic operator. The Source Operator is an abstraction of a constitutive promoter that produces output.

…

outputRegulator | Reporter

The output of the operator that is constitutively expressed

ratefloat

Output constitutive expression rate in MEFL/second

uristr, optional

SynBioHub URI

sbol_compSBOL Component, optional

SBOL Component

namestr, optional

Name of the operator displayed on the network representation

color: str, optional

Color displayed on the network representation

characterize(flapjack, receiver, inverter, media, strain, signal, biomass_signal, gamma)

Parameterize the Operator model that maps Input concentration into Output expression rate

__str__(self)

characterize(self, flapjack, vector, media, strain, signal, biomass_signal)

expression_rate(self, t, dt)

forward_model(self, Dt=0.25, sim_steps=10, odval=[1] * 97, rate=1, gamma=0, p0=0, nt=100)

residuals(self, df, oddf)