Question

Finding non-constant species in Simbiology Object

I'm reading an sbml file to create a Simbiology object modelObj = sbmlimport('File.xml'); I'd like to see the species that a...

3 months ago | 1 answer | 0

Question

Question on using cvode solver

Hi All, I have an sbml model. I get different results while simulating the model with ode15s in Simbiology and cvode in COPASI....

3 months ago | 0 answers | 0

Question

Question on specifying input to sbiosimulate

I'm using sbiosimulate to solver the model loaded from an xml file [t, x, names] = sbiosimulate(modelObj); modelObj has the ...

3 months ago | 2 answers | 0

Question

Accessing a variant object

I have a variant object of the following form ContentIndex: Type: Name: Property: Value: ...

3 months ago | 1 answer | 0

Question

Output of sbiosteadystate task

I'm using [success, variant_out] = sbiosteadystate(modelObj) to find the steady states of the non-constant species in my mode...

3 months ago | 1 answer | 0

Question

How to set up estimation method in sbiofit

Hi All, I'm trying to estimate parametrs in my model using parameter estimation task in SimBiology toolbox.In the documentation...

3 months ago | 1 answer | 0

Question

Setting variables to constants in MATLAB

I have a set of differential equations and I want to set some of the variables to be constant. For instance, dy1dt = f(..) ...

3 months ago | 0 answers | 0

Question

How to run the model in SBML file?

Hi All, I have a differential equation model(kinetic model) in sbml file. I want to run this model using ode15s solver. How ...

3 months ago | 1 answer | 0

Question

Question regarding passing input arguments in fmincon

Hi All, I am solving an optimization problem.There are no equality constraints in my model. I want to pass ODEs as constraint ...

3 months ago | 1 answer | 0

Question

Parameter estimation using shooting method

Hi All, I want to do the following, I have a set of 20 first order differential equations and I want to estimate some of the...

3 months ago | 0 answers | 0

Question

Parameter estimation - How to input experiment data?

Hi All, I want to perform parameter estimation of the following ode model. 5 parameters have to be estimated after perfo...

3 months ago | 0 answers | 0

Question

Fix the maximum number of iterations while using ode solvers

Could someone let me know to fix the maximum number of ierations while solving a set of differential equation using ode15s? I...

5 months ago | 1 answer | 0

Question

Solving system of equations with constraints

I am solving a system of linear equations with constraints using linprog. Aeq = [-1 0 1 0 0 0 0;1 -1 0 -1 0 0 0;0 1 0 0 1 0 0;...

6 months ago | 2 answers | 0

Question

Stiff differential equation solvers

I'm trying to understand how the stiff differential equations are solved in ode5s and ode15i. If my understanding is right, sti...

6 months ago | 1 answer | 0

Question

Access to a reference

I'm looking for the refernce provided in the end of this page, https://in.mathworks.com/help/matlab/ref/ode15i.html I don't ...

6 months ago | 1 answer | 0

Question

Defining mass matrix for solving transport equation

I want to solve the following 1-D pde which is discretized in spacial direction to solve using ode15s. Dc/Dt = D*D^c/Dx^2 - v*...

6 months ago | 0 answers | 0

Question

Factorizing a matrix with 1's along diagonal

I want to factorize the follwoing matrix, A= 2 -1 0 0 -1 2 -1 0 0 -1 2 -1 ...

7 months ago | 1 answer | 0

Question

Question regarding xmesh option in pdepe solver

The command xmesh is given as an input to the pdepe solver. For example xmesh = 1:1:10 Does this mean the solver internally...

7 months ago | 0 answers | 0

Question

Solving advection diffusion pde

I want to solve the above pde with the given boundary and initial conditions. I came across the pdepe function in MATLAB. I...

7 months ago | 1 answer | 0

Question

Implementing boundary condition in pdepe

From the general expression of a pde given here Could someone check if the following implementation of the boundary cond...

7 months ago | 1 answer | 0

Question

coloring node and edge of a graph

I have a graph with values assigned to nodes and edges, t = 1:4; h = 2:5; g = graph(t,h); plot(g) g.Edges.value = [10; 20...

7 months ago | 2 answers | 0

Question

Obtaining laplacian of a graph

The Neumann Laplacian of a simple graph(G) can be formed from the commands degree(G) and adjacency(G), L= D- A . Could someone...

7 months ago | 0 answers | 0

Question

Question on using addedge()

How do we use addedge to assign weights to a graph containing edges with multiple edge weigths(Value1 and Value2, in my example)...

7 months ago | 1 answer | 0

Question

Modify the weight of few edges in Graph

I have the following graph with 4 edges. tail = [1 2 3 4]; head = [2 3 4 5]; G = graph(tail,head) G.Edges.Value = zeros(4...

7 months ago | 1 answer | 0

Question

Drawing a directed graph

I have the following graph, function Digraph() Edges = [1 2;2 3;3 4; 3 5;4 5;4 6;5 6;6 7] t= Edges(:,1) h = Edges(:,2) G =...

7 months ago | 1 answer | 0

Question

Solving a system of linear equations with a few known variables

I'm solving the following system of linear equations, Ax = b, some of the x's are knowns. For example, A= -12 12 ...

7 months ago | 2 answers | 0

Question

Finding the pseudo inverse of a matrix

I'm trying to find the inverse of the following matrix A = -185.0685 185.0685 0 185.0685 -274.3238 89.2553 ...

7 months ago | 3 answers | 0

Question

Alternatives for concise representation of conditional statements

I have the following code with multiple conditional statements . Could someone suggest if there is a consice way of writing the ...

8 months ago | 1 answer | 0

Question

How to find the Laplacian of a Graph with multiple edges

I'm using MATLAB online version 2018b. I'd like to ask for help in using the laplacian function in graph. The adjacency(A) a...

8 months ago | 1 answer | 0

Question

Importing a list of tuples genrated in python to MATLAB

I have a list of tuples generated in python. The list is save in a text file and loaded in MATLAB. [(2, 4), (2, 12), (2, 8)] ...

8 months ago | 1 answer | 0