@@ -120,7 +120,7 @@ overridden by these condition-specific values. Here, we define the Epo
120120concentration, but additional columns could be used to e.g. set
121121different initial concentrations of STAT5A/B. In addition to numeric
122122values, also parameter identifiers can be used here to introduce
123- condition specific optimization parameters.
123+ condition specific estimateable parameters.
124124
1251252.2 Specifying the observation model
126126------------------------------------
@@ -273,17 +273,17 @@ The parameters file for this is given by:
273273 observables (*sd_{observableId} *) are estimated.
274274
275275* *parameterScale * is the scale on which parameters are estimated. Often,
276- a logarithmic scale improves optimization . Alternatively, a linear scale
276+ a logarithmic scale improves estimation . Alternatively, a linear scale
277277 can be used, e.g. when parameters can be negative.
278278
279279* *lowerBound * and *upperBound * define the bounds for the parameters used
280- during optimization . These are usually biologically plausible ranges.
280+ during estimation . These are usually biologically plausible ranges.
281281
282282* *nominalValue * are known values used for simulation. The entry can be
283- left empty, if a value is unknown and subject to optimization .
283+ left empty, if a value is unknown and requires estimation .
284284
285- * *estimate * defines whether the parameter is subject to optimization (1)
286- or if it is fixed (0) to the value in the nominalValue column.
285+ * *estimate * defines whether the parameter will be estimated (1)
286+ or be fixed (0) to the value in the nominalValue column.
287287
2882884. Visualization file
289289+++++++++++++++++++++
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