Trying to create neural network but getting a NaN error from dataset

%Import/Upload data
load generated_data.mat
%transposing glucose data
X1_T = X1';
%transposing insulin data
X2_T = X2';
%Separating data in training, validation and testing data
X1_train = X1_T;
%Partioning data for training
train_X1 = X1_train(1:120,:);
%Separating and partioning for validation data
val_X1 = X1_train(121:150,:);
%Separating and partioning for test data
test_X1 = X1_train(151:180,:);
%Separating data in training, validation and testing data
X2_train = X2_T;
%Partioning data for training
train_X2 = X2_train(1:120,:);
%Separating and partioning for validation data
val_X2 = X2_train(121:150,:);
%Separating and partioning for test data
test_X2 = X2_train(151:180,:);
%The number of features chosen to be two representing both glucose and
%insulin
numFeatures = 2;
% number of hidden units represent the size of the data
numHiddenUnits = 180;
%number of classes represent different patients normal,LIS,type2....
numClasses = 6;
layers = [ ...
    sequenceInputLayer(numFeatures)
    lstmLayer(numHiddenUnits,'OutputMode','last')
    fullyConnectedLayer(numClasses)
    softmaxLayer
    classificationLayer];
options = trainingOptions('adam', ...
    'MaxEpochs',60, ...
    'GradientThreshold',2, ...
    'Verbose',0, ...
    'Plots','training-progress');
isnan(train_X1)
net = trainNetwork(train_X1,Y1,layers,options);

[KSSV]

Check your data. The file generated_data.mat has any nans? If so you need to remove them or fill them suitable values.

[KSSV]

OP commented:

So it is a large set of data can you recommend any ways that I can alter the data to get rid of these Nans?

[KSSV]

How is your data? Attach a snippet of data.

Answer 1

[Walter Roberson]

net = trainNetwork(train_X1, string(Y1), layers, options);

However:

Error using trainNetwork (line 184)

The training sequences are of feature dimension 120 but the input layer expects sequences of feature dimension 2.

And indeed you coded

numFeatures = 2;

If you are only wanting to pass in two features then you are going to have to extract those two features out of your 120 x 2289 array.

[Nathaniel Porter]

Thank you

Answer 2

[Nathaniel Porter]

%Import/Upload data
load generated_data.mat
%transposing glucose data
X1_T = X1';
%transposing insulin data
X2_T = X2';
%Separating data in training, validation and testing data
X1_train = X1_T;
%Partioning data for training
train_X1 = X1_train(1:120,:);
%Separating and partioning for validation data
val_X1 = X1_train(121:150,:);
%Separating and partioning for test data
test_X1 = X1_train(151:180,:);
%Separating data in training, validation and testing data
X2_train = X2_T;
%Partioning data for training
train_X2 = X2_train(1:120,:);
%Separating and partioning for validation data
val_X2 = X2_train(121:150,:);
%Separating and partioning for test data
test_X2 = X2_train(151:180,:);
%The number of features chosen to be two representing both glucose and
%insulin
numFeatures = 2;
% number of hidden units represent the size of the data
numHiddenUnits = 180;
%number of classes represent different patients normal,LIS,type2....
numClasses = 6;
layers = [ ...
    sequenceInputLayer(numFeatures)
    lstmLayer(numHiddenUnits,'OutputMode','last')
    fullyConnectedLayer(numClasses)
    softmaxLayer
    classificationLayer];
options = trainingOptions('adam', ...
    'MaxEpochs',60, ...
    'GradientThreshold',2, ...
    'Verbose',0, ...
    'Plots','training-progress');
isnan(train_X1)
net = trainNetwork(train_X1,Y1,layers,options);

[Nathaniel Porter]

Also attached the data file

Answer 3

[yanqi liu]

clc; clear all; close all;
%Import/Upload data
load generated_data.mat
%transposing glucose data
X1_T = X1';
%transposing insulin data
X2_T = X2';
%Separating data in training, validation and testing data
X1_train = X1_T;
%Partioning data for training
train_X1 = X1_train(1:120,:);
train_Y1 = Y1(1:120);
%Separating and partioning for validation data
val_X1 = X1_train(121:150,:);
%Separating and partioning for test data
test_X1 = X1_train(151:180,:);
%Separating data in training, validation and testing data
X2_train = X2_T;
%Partioning data for training
train_X2 = X2_train(1:120,:);
%Separating and partioning for validation data
val_X2 = X2_train(121:150,:);
%Separating and partioning for test data
test_X2 = X2_train(151:180,:);
%The number of features chosen to be two representing both glucose and
%insulin
numFeatures = size(X1_T,2);
% number of hidden units represent the size of the data
numHiddenUnits = 180;
%number of classes represent different patients normal,LIS,type2....
numClasses = length(categories(categorical(Y1)));
layers = [ ...
    sequenceInputLayer(numFeatures)
    lstmLayer(numHiddenUnits)
    fullyConnectedLayer(numClasses)
    softmaxLayer
    classificationLayer];
options = trainingOptions('adam', ...
    'MaxEpochs',60, ...
    'GradientThreshold',2, ...
    'Verbose',0, ...
    'Plots','training-progress');
net = trainNetwork(X1_train',categorical(Y1),layers,options);

[Nathaniel Porter]

Thank you