Issue with SEIR model for mathlab

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Jacobo CHoy
Jacobo CHoy 2020 年 3 月 20 日
コメント済み: charles aouad 2020 年 3 月 23 日
Hello,
I am quite new in mathlab and i am trying to test the SEIR model but i can not get it to run. I have problems when i try to run the code.
I am using this github repository to calculate it. https://github.com/ECheynet/SEIR and also this file from the fileexchange
https://la.mathworks.com/matlabcentral/fileexchange/74545-generalized-seir-epidemic-model-fitting-and-computation
I have tried to run the example 3 ( in the github ) with all the files but when I run it I get the output :
Error using SEIQRDP
Too many input arguments.
Error in example3 (line 38)
[S,E,I,Q,R,D,P] = SEIQRDP(alpha1,beta1,gamma1,delta1,Lambda1,Kappa1,Npop,E0,I0,Q0,R0,D0,t);
I put the example 3 file below,
maybe you can help me find the issue? It might be very simple...
The example 3 file.
clearvars;close all;clc;
load('DATA.mat','tableRecovered','tableDeaths','tableConfirmed','time')
indLocation = find(contains(tableRecovered.CountryRegion,'Italy')==1)
tableRecovered(indLocation,1:2)
indLocation = indLocation(1)
Recovered = table2array(tableRecovered(indLocation,5:end));
Deaths = table2array(tableDeaths(indLocation,5:end));
Confirmed = table2array(tableConfirmed(indLocation,5:end));
% If the number of confirmed Confirmed cases is small, it is difficult to know whether
% the quarantine has been rigorously applied or not. In addition, this
% suggests that the number of infectious is much larger than the number of
% confirmed cases
minNum= 40;
Recovered(Confirmed<=minNum)=[];
Deaths(Confirmed<=minNum)=[];
time(Confirmed<=minNum)= [];
Confirmed(Confirmed<=minNum)=[];
Npop= 120e6; % population
guess = [0.06,1.2,1/5,1/40,0.01,0.02,0.01,0.02]; % my guess for the fit
E0 = Confirmed(1); % Initial number of exposed cases (we do not know it, so it is set at zero)
I0 = Confirmed(1); % Initial number of infectious cases (we do not know it, so it is the number of quarantined)
Q0 = Confirmed(1);
R0 = Recovered(1);
D0 = Deaths(1);
[alpha1,beta1,gamma1,delta1,Lambda1,Kappa1] = ...
 fit_SEIQRDP(Confirmed-Recovered-Deaths,Recovered,Deaths,Npop,E0,I0,time,guess);
dt = 0.1; % time step
time1 = datetime(time(1)):dt:datetime(2020,3,25,0,0,0);
N = numel(time1);
t = [0:N-1].*dt;
[S,E,I,Q,R,D,P] = SEIQRDP(alpha1,beta1,gamma1,delta1,Lambda1,Kappa1,Npop,E0,I0,Q0,R0,D0,t);
figure
semilogy(time1,Q,'r',time1,R,'b',time1,D,'k');
hold on
semilogy(time,Confirmed-Recovered-Deaths,'ro',time,Recovered,'bo',time,Deaths,'ko');
% ylim([0,1.1*Npop])
ylabel('Number of cases')
xlabel('time (days)')
% leg = {'susceptible','exposed','infectious','quarantined','recovered','Dead','insusceptible'};
leg = {'Quarantined (confirmed infectious)','recovered','Dead'};
legend(leg{:},'location','southoutside')
set(gcf,'color','w')
grid on
axis tight
% ylim([1,8e4])
set(gca,'yscale','lin')

採用された回答

E. Cheynet
E. Cheynet 2020 年 3 月 21 日
Hi,
I am not able to reproduce your error. The file is running normally on my Matlab version, both with a live script and a normal script. I see one possibility for the error you have: you use an older version of SEIQRDP. Previous versions of SEIQRDP accepted less inputs than the new one.
  5 件のコメント
charles aouad
charles aouad 2020 年 3 月 23 日
Hi jacobo Thanx for your reply I am using r2018 I will try again, maybe this command only works for 2020 release?

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