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# *
# * Authors: Carlos Oscar Sorzano (info@kinestat.com)
# *
# * Kinestat Pharma
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# * This program is free software; you can redistribute it and/or modify
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import pyworkflow.protocol.params as params
from .protocol_pkpd_ode_base import ProtPKPDODEBase
from pkpd.models.pk_models import PK_MonocompartmentUrine
# TESTED in test_workflow_gabrielsson_pk05.py
# TESTED in test_workflow_gabrielsson_pk06.py
[docs]class ProtPKPDMonoCompartmentUrine(ProtPKPDODEBase):
""" Fit a monocompartmental model to a set of plasma and urine (cumulated) measurements ((any arbitrary dosing regimen is allowed)\n
The differential equation is dC/dt = -Cl * C/V + 1/V * dD/dt and dA/dt = fe * Cl * C\n
where C is the concentration, Cl the clearance, V the distribution volume, D the input dosing regime and fe the fraction excreted.
Confidence intervals calculated by this fitting may be pessimistic because it assumes that all model parameters
are independent, which are not. Use Bootstrap estimates instead.\n
Protocol created by http://www.kinestatpharma.com\n"""
_label = 'monocompartment urine'
#--------------------------- DEFINE param functions --------------------------------------------
def _defineParams(self, form):
self._defineParams1(form)
form.addParam('predictor', params.StringParam, label="Time variable", default="t")
form.addParam('predicted', params.StringParam, label="Plasma concentration", default="Cp")
form.addParam('Au', params.StringParam, label="Cumulated amount in urine", default="Au")
form.addParam('bounds', params.StringParam, label="Parameter bounds ([tlag], Cl, V, fe)", default="",
help="Bounds for the tlag (if it must be estimated), clearance, volume and fraction excreted."\
'Make sure that the bounds are expressed in the expected units (estimated from the sample itself).'\
'If tlag must be estimated, its bounds must always be specified')
[docs] def getXYvars(self):
self.varNameX=self.predictor.get()
self.varNameY=[self.predicted.get(),self.Au.get()]
[docs] def createModel(self):
return PK_MonocompartmentUrine()