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Variable Stoichiometric Coefficients in SimBiology?
Hi Sebastian, Pramod's suggestion to modify the reaction via the Stoichiometry property is only helpful if you are willing to w...

más de 14 años hace | 0

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strange error in Simbiology
From looking at the Java error log, I suspect it's a bug and/or memory leak in Java's handling of zip files. I'm still trying to...

casi 15 años hace | 0

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SimBiology parameter fit
sbionlinfit uses a local optimization routine that does not support parameter bounds. Even fmincon, which does support parameter...

casi 15 años hace | 0

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How to output reaction rates for each time step in Simbiology?
Hi Frank, Unfortunately, SimBiology does not currently provide direct access to the calculated rates. There are a couple of o...

casi 15 años hace | 1

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sbiosimulate with events
Hi Omar, Are there any other obvious difference in the simulations? If the model appears to be the same in both cases, then p...

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simbiology: how to combine multiple species when plotting a graph?
Hi Molly, Regarding part 1: Probably the easiest way to do what you want is to add an pseudo-species to represent the sum ...

casi 15 años hace | 0

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get initial amounts of some species
As of R2011a, you can use sbioparamestim to estimate the initial amount of a species. If you can't easily upgrade to R2011a, you...

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Matlab crash; Java HotSpot(TM) 64-Bit Server VM warning
Per Walter's suggestion, you can try increasing the Java heap via a MATLAB <http://www.mathworks.com/help/techdoc/matlab_env/brj...

alrededor de 15 años hace | 0

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SBML import in Matlab
Hi Razvan, The problem is that three species in the file (Gpr1Glucout, Gpa2a, and Gpa2aKrh) have a negative concentration, whic...

alrededor de 15 años hace | 0

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Fluctuations in Simbiology
Hi Razvan, I think the answer will ultimately depend on what you know about the fluctuations and what sort of questions you'r...

alrededor de 15 años hace | 0

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Events which introduce dicontinuities (Simbiology toolbox)
Hi Razvan, There's a SimBiology demo on this topic. Execute the following from the MATLAB prompt and see if that answers your...

alrededor de 15 años hace | 0

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Parameter estimation with more data sets
Hi Razvan, Here's additional information on how you can fit simulations to the same data set using lsqnonlin. You can also fi...

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Parameter estimation with more data sets
Hi Razvan, sbioparamestim only allows you to estimate one set of parameters using one set of data. I think the easiest way to...

más de 15 años hace | 0

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Accessing a simbiology class
Hi Omar, In the code you typed above, "msp" should be a vector of species objects that you can index using "msp(1)", "msp(2)"...

más de 15 años hace | 0

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Problems with a simbiology model
Question 1: First, a little background. In SimBiology, parameters can be associated either with a model (sometimes called "model...

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