SciKit-Learn Decision Tree Overfitting The 2019 Stack Overflow Developer Survey Results Are In Announcing the arrival of Valued Associate #679: Cesar Manara Planned maintenance scheduled April 17/18, 2019 at 00:00UTC (8:00pm US/Eastern) 2019 Moderator Election Q&A - Questionnaire 2019 Community Moderator Election Resultssklearn - overfitting problemWeka Decision Tree not working on real dataContrasting logistic regression vs decision tree performance in specific exampleOverfitting and cross-validationTensorflow regression predicting 1 for all inputsDecision tree not using all features from training datasetOverfitting problem in modelMachine learning - 'train_test_split' function in scikit-learn: should I repeat it several times?Not sure if over-fittingIs Overfitting always bad?

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SciKit-Learn Decision Tree Overfitting



The 2019 Stack Overflow Developer Survey Results Are In
Announcing the arrival of Valued Associate #679: Cesar Manara
Planned maintenance scheduled April 17/18, 2019 at 00:00UTC (8:00pm US/Eastern)
2019 Moderator Election Q&A - Questionnaire
2019 Community Moderator Election Resultssklearn - overfitting problemWeka Decision Tree not working on real dataContrasting logistic regression vs decision tree performance in specific exampleOverfitting and cross-validationTensorflow regression predicting 1 for all inputsDecision tree not using all features from training datasetOverfitting problem in modelMachine learning - 'train_test_split' function in scikit-learn: should I repeat it several times?Not sure if over-fittingIs Overfitting always bad?










1












$begingroup$


I'm pursuing a computer science minor at my university, and one class I'm in is Machine Learning.
We have a project to utilize a few algorithms we have learned so far.
I've been using SciKit-Learn to perform these algorithms, but when it comes to decision trees I keep getting a feeling I am overfitting.



I'm using a dataset about weather, giving characteristics such as city, state, month, year, wind direction, wind speed, etc... where the target variable is the average temperature for the day. Now I know this is hard to classify, as it is pretty much a continuous variable space, but I've simplified it to the predicted being within a range of 5 to the actual.



Here is a link to the csv I'm using



The following is my code:



address2 = 'C:/.../weather.csv'
weather = pd.read_csv(address2)

cityCode= le.fit_transform(weather.iloc[:,2])
windDirection = le.fit_transform(weather.iloc[:,3])
month = le.fit_transform(weather.iloc[:,8])
precip = le.fit_transform(weather.iloc[:,9])
windSpeed = le.fit_transform(weather.iloc[:,10])
state = le.fit_transform(weather.iloc[:,11])
week = le.fit_transform(weather.iloc[:,12])
year = le.fit_transform(weather.iloc[:,13])

Xweather = list(zip(cityCode,windDirection,month,precip,windSpeed,state,week,year))
yweather= weather.iloc[:,0]

yweather_test = train_test_split(Xweather, y, test_size = 0.2, random_state=413)

cWeather = tree.DecisionTreeClassifier()
cWeather.fit(Xweather_train,yweather_train)
accu_train_weather=np.sum(abs(cWeather.predict(Xweather_train)-yweather_train)<=5)/float(yweather_train.size)*100
accu_test_weather=np.sum(abs(cWeather.predict(Xweather_test)-yweather_test)<=5)/float(yweather_test.size)*100
print("Classificaton accuracy on training set", accu_train_weather, "%")
print("Classificaton accuracy on test set", accu_test_weather, "%")


My training set constantly gets 100% training accuracy, but the test set is constantly 57% accurate, which leads me to believe the tree is overfitting to the training set.



I know I'm not doing any pruning, but even when I do, I can get the same test accuracy as unpruned at best.
By pruning I mean setting the tree classifier to have a maximum number of leaves, minimum samples per leaf, and maximum depth.



I'm not an advanced coder (as you can probably tell by my code), but any help would be great.










share|improve this question









$endgroup$




bumped to the homepage by Community 39 mins ago


This question has answers that may be good or bad; the system has marked it active so that they can be reviewed.



















    1












    $begingroup$


    I'm pursuing a computer science minor at my university, and one class I'm in is Machine Learning.
    We have a project to utilize a few algorithms we have learned so far.
    I've been using SciKit-Learn to perform these algorithms, but when it comes to decision trees I keep getting a feeling I am overfitting.



    I'm using a dataset about weather, giving characteristics such as city, state, month, year, wind direction, wind speed, etc... where the target variable is the average temperature for the day. Now I know this is hard to classify, as it is pretty much a continuous variable space, but I've simplified it to the predicted being within a range of 5 to the actual.



    Here is a link to the csv I'm using



    The following is my code:



    address2 = 'C:/.../weather.csv'
    weather = pd.read_csv(address2)

    cityCode= le.fit_transform(weather.iloc[:,2])
    windDirection = le.fit_transform(weather.iloc[:,3])
    month = le.fit_transform(weather.iloc[:,8])
    precip = le.fit_transform(weather.iloc[:,9])
    windSpeed = le.fit_transform(weather.iloc[:,10])
    state = le.fit_transform(weather.iloc[:,11])
    week = le.fit_transform(weather.iloc[:,12])
    year = le.fit_transform(weather.iloc[:,13])

    Xweather = list(zip(cityCode,windDirection,month,precip,windSpeed,state,week,year))
    yweather= weather.iloc[:,0]

    yweather_test = train_test_split(Xweather, y, test_size = 0.2, random_state=413)

    cWeather = tree.DecisionTreeClassifier()
    cWeather.fit(Xweather_train,yweather_train)
    accu_train_weather=np.sum(abs(cWeather.predict(Xweather_train)-yweather_train)<=5)/float(yweather_train.size)*100
    accu_test_weather=np.sum(abs(cWeather.predict(Xweather_test)-yweather_test)<=5)/float(yweather_test.size)*100
    print("Classificaton accuracy on training set", accu_train_weather, "%")
    print("Classificaton accuracy on test set", accu_test_weather, "%")


    My training set constantly gets 100% training accuracy, but the test set is constantly 57% accurate, which leads me to believe the tree is overfitting to the training set.



    I know I'm not doing any pruning, but even when I do, I can get the same test accuracy as unpruned at best.
    By pruning I mean setting the tree classifier to have a maximum number of leaves, minimum samples per leaf, and maximum depth.



    I'm not an advanced coder (as you can probably tell by my code), but any help would be great.










    share|improve this question









    $endgroup$




    bumped to the homepage by Community 39 mins ago


    This question has answers that may be good or bad; the system has marked it active so that they can be reviewed.

















      1












      1








      1


      1



      $begingroup$


      I'm pursuing a computer science minor at my university, and one class I'm in is Machine Learning.
      We have a project to utilize a few algorithms we have learned so far.
      I've been using SciKit-Learn to perform these algorithms, but when it comes to decision trees I keep getting a feeling I am overfitting.



      I'm using a dataset about weather, giving characteristics such as city, state, month, year, wind direction, wind speed, etc... where the target variable is the average temperature for the day. Now I know this is hard to classify, as it is pretty much a continuous variable space, but I've simplified it to the predicted being within a range of 5 to the actual.



      Here is a link to the csv I'm using



      The following is my code:



      address2 = 'C:/.../weather.csv'
      weather = pd.read_csv(address2)

      cityCode= le.fit_transform(weather.iloc[:,2])
      windDirection = le.fit_transform(weather.iloc[:,3])
      month = le.fit_transform(weather.iloc[:,8])
      precip = le.fit_transform(weather.iloc[:,9])
      windSpeed = le.fit_transform(weather.iloc[:,10])
      state = le.fit_transform(weather.iloc[:,11])
      week = le.fit_transform(weather.iloc[:,12])
      year = le.fit_transform(weather.iloc[:,13])

      Xweather = list(zip(cityCode,windDirection,month,precip,windSpeed,state,week,year))
      yweather= weather.iloc[:,0]

      yweather_test = train_test_split(Xweather, y, test_size = 0.2, random_state=413)

      cWeather = tree.DecisionTreeClassifier()
      cWeather.fit(Xweather_train,yweather_train)
      accu_train_weather=np.sum(abs(cWeather.predict(Xweather_train)-yweather_train)<=5)/float(yweather_train.size)*100
      accu_test_weather=np.sum(abs(cWeather.predict(Xweather_test)-yweather_test)<=5)/float(yweather_test.size)*100
      print("Classificaton accuracy on training set", accu_train_weather, "%")
      print("Classificaton accuracy on test set", accu_test_weather, "%")


      My training set constantly gets 100% training accuracy, but the test set is constantly 57% accurate, which leads me to believe the tree is overfitting to the training set.



      I know I'm not doing any pruning, but even when I do, I can get the same test accuracy as unpruned at best.
      By pruning I mean setting the tree classifier to have a maximum number of leaves, minimum samples per leaf, and maximum depth.



      I'm not an advanced coder (as you can probably tell by my code), but any help would be great.










      share|improve this question









      $endgroup$




      I'm pursuing a computer science minor at my university, and one class I'm in is Machine Learning.
      We have a project to utilize a few algorithms we have learned so far.
      I've been using SciKit-Learn to perform these algorithms, but when it comes to decision trees I keep getting a feeling I am overfitting.



      I'm using a dataset about weather, giving characteristics such as city, state, month, year, wind direction, wind speed, etc... where the target variable is the average temperature for the day. Now I know this is hard to classify, as it is pretty much a continuous variable space, but I've simplified it to the predicted being within a range of 5 to the actual.



      Here is a link to the csv I'm using



      The following is my code:



      address2 = 'C:/.../weather.csv'
      weather = pd.read_csv(address2)

      cityCode= le.fit_transform(weather.iloc[:,2])
      windDirection = le.fit_transform(weather.iloc[:,3])
      month = le.fit_transform(weather.iloc[:,8])
      precip = le.fit_transform(weather.iloc[:,9])
      windSpeed = le.fit_transform(weather.iloc[:,10])
      state = le.fit_transform(weather.iloc[:,11])
      week = le.fit_transform(weather.iloc[:,12])
      year = le.fit_transform(weather.iloc[:,13])

      Xweather = list(zip(cityCode,windDirection,month,precip,windSpeed,state,week,year))
      yweather= weather.iloc[:,0]

      yweather_test = train_test_split(Xweather, y, test_size = 0.2, random_state=413)

      cWeather = tree.DecisionTreeClassifier()
      cWeather.fit(Xweather_train,yweather_train)
      accu_train_weather=np.sum(abs(cWeather.predict(Xweather_train)-yweather_train)<=5)/float(yweather_train.size)*100
      accu_test_weather=np.sum(abs(cWeather.predict(Xweather_test)-yweather_test)<=5)/float(yweather_test.size)*100
      print("Classificaton accuracy on training set", accu_train_weather, "%")
      print("Classificaton accuracy on test set", accu_test_weather, "%")


      My training set constantly gets 100% training accuracy, but the test set is constantly 57% accurate, which leads me to believe the tree is overfitting to the training set.



      I know I'm not doing any pruning, but even when I do, I can get the same test accuracy as unpruned at best.
      By pruning I mean setting the tree classifier to have a maximum number of leaves, minimum samples per leaf, and maximum depth.



      I'm not an advanced coder (as you can probably tell by my code), but any help would be great.







      machine-learning python scikit-learn decision-trees overfitting






      share|improve this question













      share|improve this question











      share|improve this question




      share|improve this question










      asked Feb 9 at 23:03









      PaulfryyPaulfryy

      61




      61





      bumped to the homepage by Community 39 mins ago


      This question has answers that may be good or bad; the system has marked it active so that they can be reviewed.







      bumped to the homepage by Community 39 mins ago


      This question has answers that may be good or bad; the system has marked it active so that they can be reviewed.






















          2 Answers
          2






          active

          oldest

          votes


















          0












          $begingroup$

          The vanilla decision tree algorithm is prone to overfitting. That's kind of why we have those ensembled tree algorithm. The classics include Random Forests, AdaBoost, and Gradient Boosted Trees. All of those are implemented in sklearn.



          There are other more advanced variation/implementation outside sklearn, for example, lightGBM and xgboost etc.



          If you must use the vanilla decision tree, trying to reduce the dimensionality of your inputs might help to reduce overfitting.






          share|improve this answer











          $endgroup$












          • $begingroup$
            Thanks for the answer. So even though I implement a rudimentary version of pruning (by limiting the number of leaves, minimum samples per leaf, and max depth) I can still overfit?
            $endgroup$
            – Paulfryy
            Feb 10 at 15:21










          • $begingroup$
            think this way, what would happen if you use the simplest possible decision tree there can be, the one with a depth of 1 and 2 leave node? Is it going to overfit? Not very likely isn't it? But the performance is also going to be miserable. The more complex your tree is, the greater the ability it has to model complex problem, but this complexity also means more likely to overfit. Some algorithms are better than the others because they can give you more expressive power but also least likely to overfit at the same time.
            $endgroup$
            – Louis T
            Feb 11 at 6:59


















          0












          $begingroup$

          Predicting average temperature is a regression task, not classification. You should be using DecisionTreeRegressor instead. Temperature is a continuous value and you are treating it as a category by using a classifier.



          Tinkering with the hyperparameters (maximum number of leaves, minimum samples per leaf, and maximum depth, etc) is still important since decision trees always are prone to overfitting. If you struggle to find good parameters yourself then you can try some automated methods such as GridSearchCV or RandomizedSearchCV in sklearn.






          share|improve this answer









          $endgroup$













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            2 Answers
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            2 Answers
            2






            active

            oldest

            votes









            active

            oldest

            votes






            active

            oldest

            votes









            0












            $begingroup$

            The vanilla decision tree algorithm is prone to overfitting. That's kind of why we have those ensembled tree algorithm. The classics include Random Forests, AdaBoost, and Gradient Boosted Trees. All of those are implemented in sklearn.



            There are other more advanced variation/implementation outside sklearn, for example, lightGBM and xgboost etc.



            If you must use the vanilla decision tree, trying to reduce the dimensionality of your inputs might help to reduce overfitting.






            share|improve this answer











            $endgroup$












            • $begingroup$
              Thanks for the answer. So even though I implement a rudimentary version of pruning (by limiting the number of leaves, minimum samples per leaf, and max depth) I can still overfit?
              $endgroup$
              – Paulfryy
              Feb 10 at 15:21










            • $begingroup$
              think this way, what would happen if you use the simplest possible decision tree there can be, the one with a depth of 1 and 2 leave node? Is it going to overfit? Not very likely isn't it? But the performance is also going to be miserable. The more complex your tree is, the greater the ability it has to model complex problem, but this complexity also means more likely to overfit. Some algorithms are better than the others because they can give you more expressive power but also least likely to overfit at the same time.
              $endgroup$
              – Louis T
              Feb 11 at 6:59















            0












            $begingroup$

            The vanilla decision tree algorithm is prone to overfitting. That's kind of why we have those ensembled tree algorithm. The classics include Random Forests, AdaBoost, and Gradient Boosted Trees. All of those are implemented in sklearn.



            There are other more advanced variation/implementation outside sklearn, for example, lightGBM and xgboost etc.



            If you must use the vanilla decision tree, trying to reduce the dimensionality of your inputs might help to reduce overfitting.






            share|improve this answer











            $endgroup$












            • $begingroup$
              Thanks for the answer. So even though I implement a rudimentary version of pruning (by limiting the number of leaves, minimum samples per leaf, and max depth) I can still overfit?
              $endgroup$
              – Paulfryy
              Feb 10 at 15:21










            • $begingroup$
              think this way, what would happen if you use the simplest possible decision tree there can be, the one with a depth of 1 and 2 leave node? Is it going to overfit? Not very likely isn't it? But the performance is also going to be miserable. The more complex your tree is, the greater the ability it has to model complex problem, but this complexity also means more likely to overfit. Some algorithms are better than the others because they can give you more expressive power but also least likely to overfit at the same time.
              $endgroup$
              – Louis T
              Feb 11 at 6:59













            0












            0








            0





            $begingroup$

            The vanilla decision tree algorithm is prone to overfitting. That's kind of why we have those ensembled tree algorithm. The classics include Random Forests, AdaBoost, and Gradient Boosted Trees. All of those are implemented in sklearn.



            There are other more advanced variation/implementation outside sklearn, for example, lightGBM and xgboost etc.



            If you must use the vanilla decision tree, trying to reduce the dimensionality of your inputs might help to reduce overfitting.






            share|improve this answer











            $endgroup$



            The vanilla decision tree algorithm is prone to overfitting. That's kind of why we have those ensembled tree algorithm. The classics include Random Forests, AdaBoost, and Gradient Boosted Trees. All of those are implemented in sklearn.



            There are other more advanced variation/implementation outside sklearn, for example, lightGBM and xgboost etc.



            If you must use the vanilla decision tree, trying to reduce the dimensionality of your inputs might help to reduce overfitting.







            share|improve this answer














            share|improve this answer



            share|improve this answer








            edited Feb 11 at 5:06









            Davide Fiocco

            2114




            2114










            answered Feb 10 at 1:50









            Louis TLouis T

            801320




            801320











            • $begingroup$
              Thanks for the answer. So even though I implement a rudimentary version of pruning (by limiting the number of leaves, minimum samples per leaf, and max depth) I can still overfit?
              $endgroup$
              – Paulfryy
              Feb 10 at 15:21










            • $begingroup$
              think this way, what would happen if you use the simplest possible decision tree there can be, the one with a depth of 1 and 2 leave node? Is it going to overfit? Not very likely isn't it? But the performance is also going to be miserable. The more complex your tree is, the greater the ability it has to model complex problem, but this complexity also means more likely to overfit. Some algorithms are better than the others because they can give you more expressive power but also least likely to overfit at the same time.
              $endgroup$
              – Louis T
              Feb 11 at 6:59
















            • $begingroup$
              Thanks for the answer. So even though I implement a rudimentary version of pruning (by limiting the number of leaves, minimum samples per leaf, and max depth) I can still overfit?
              $endgroup$
              – Paulfryy
              Feb 10 at 15:21










            • $begingroup$
              think this way, what would happen if you use the simplest possible decision tree there can be, the one with a depth of 1 and 2 leave node? Is it going to overfit? Not very likely isn't it? But the performance is also going to be miserable. The more complex your tree is, the greater the ability it has to model complex problem, but this complexity also means more likely to overfit. Some algorithms are better than the others because they can give you more expressive power but also least likely to overfit at the same time.
              $endgroup$
              – Louis T
              Feb 11 at 6:59















            $begingroup$
            Thanks for the answer. So even though I implement a rudimentary version of pruning (by limiting the number of leaves, minimum samples per leaf, and max depth) I can still overfit?
            $endgroup$
            – Paulfryy
            Feb 10 at 15:21




            $begingroup$
            Thanks for the answer. So even though I implement a rudimentary version of pruning (by limiting the number of leaves, minimum samples per leaf, and max depth) I can still overfit?
            $endgroup$
            – Paulfryy
            Feb 10 at 15:21












            $begingroup$
            think this way, what would happen if you use the simplest possible decision tree there can be, the one with a depth of 1 and 2 leave node? Is it going to overfit? Not very likely isn't it? But the performance is also going to be miserable. The more complex your tree is, the greater the ability it has to model complex problem, but this complexity also means more likely to overfit. Some algorithms are better than the others because they can give you more expressive power but also least likely to overfit at the same time.
            $endgroup$
            – Louis T
            Feb 11 at 6:59




            $begingroup$
            think this way, what would happen if you use the simplest possible decision tree there can be, the one with a depth of 1 and 2 leave node? Is it going to overfit? Not very likely isn't it? But the performance is also going to be miserable. The more complex your tree is, the greater the ability it has to model complex problem, but this complexity also means more likely to overfit. Some algorithms are better than the others because they can give you more expressive power but also least likely to overfit at the same time.
            $endgroup$
            – Louis T
            Feb 11 at 6:59











            0












            $begingroup$

            Predicting average temperature is a regression task, not classification. You should be using DecisionTreeRegressor instead. Temperature is a continuous value and you are treating it as a category by using a classifier.



            Tinkering with the hyperparameters (maximum number of leaves, minimum samples per leaf, and maximum depth, etc) is still important since decision trees always are prone to overfitting. If you struggle to find good parameters yourself then you can try some automated methods such as GridSearchCV or RandomizedSearchCV in sklearn.






            share|improve this answer









            $endgroup$

















              0












              $begingroup$

              Predicting average temperature is a regression task, not classification. You should be using DecisionTreeRegressor instead. Temperature is a continuous value and you are treating it as a category by using a classifier.



              Tinkering with the hyperparameters (maximum number of leaves, minimum samples per leaf, and maximum depth, etc) is still important since decision trees always are prone to overfitting. If you struggle to find good parameters yourself then you can try some automated methods such as GridSearchCV or RandomizedSearchCV in sklearn.






              share|improve this answer









              $endgroup$















                0












                0








                0





                $begingroup$

                Predicting average temperature is a regression task, not classification. You should be using DecisionTreeRegressor instead. Temperature is a continuous value and you are treating it as a category by using a classifier.



                Tinkering with the hyperparameters (maximum number of leaves, minimum samples per leaf, and maximum depth, etc) is still important since decision trees always are prone to overfitting. If you struggle to find good parameters yourself then you can try some automated methods such as GridSearchCV or RandomizedSearchCV in sklearn.






                share|improve this answer









                $endgroup$



                Predicting average temperature is a regression task, not classification. You should be using DecisionTreeRegressor instead. Temperature is a continuous value and you are treating it as a category by using a classifier.



                Tinkering with the hyperparameters (maximum number of leaves, minimum samples per leaf, and maximum depth, etc) is still important since decision trees always are prone to overfitting. If you struggle to find good parameters yourself then you can try some automated methods such as GridSearchCV or RandomizedSearchCV in sklearn.







                share|improve this answer












                share|improve this answer



                share|improve this answer










                answered Mar 13 at 8:53









                Simon LarssonSimon Larsson

                800114




                800114



























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                    ValueError: Expected n_neighbors <= n_samples, but n_samples = 1, n_neighbors = 6 (SMOTE) The 2019 Stack Overflow Developer Survey Results Are InCan SMOTE be applied over sequence of words (sentences)?ValueError when doing validation with random forestsSMOTE and multi class oversamplingLogic behind SMOTE-NC?ValueError: Error when checking target: expected dense_1 to have shape (7,) but got array with shape (1,)SmoteBoost: Should SMOTE be ran individually for each iteration/tree in the boosting?solving multi-class imbalance classification using smote and OSSUsing SMOTE for Synthetic Data generation to improve performance on unbalanced dataproblem of entry format for a simple model in KerasSVM SMOTE fit_resample() function runs forever with no result