Presentation on theme: "Model generalization Test error Bias, variance and complexity"— Presentation transcript:
1 Model generalization Test error Bias, variance and complexity In-sample errorCross-validationBootstrap“Bet on sparsity”
2 ModelTraining dataModelTesting dataTesting error rateTraining error rateGood performance on testing data, which is independent from the training data, is most important for a model.It serves as the basis in model selection.
3 In classification, categorical G (class label): Test errorTo evaluate prediction accuracy, loss functions are needed. Continuous Y:In classification, categorical G (class label):Where ，Except in rare cases (e.g. 1 nearest neighbor), the trained classifier always gives a probabilistic outcome.
4 Test errorThe log-likelihood can be used as a loss-function for general response densities, such as the Poisson, gamma, exponential, log-normal and others.If Prθ(X)(Y) is the density of Y , indexed by a parameter θ(X) that depends on the predictor X, thenThe 2 makes the log-likelihood loss for the Gaussian distribution match squared error loss.
5 Test errorTest error: The expected loss over an INDEPENDENT test set. The expectation is taken with regard to everything that’s random - both the training set and the test set.In practice it is more feasible to estimate the testing error given a training set:Training error is the averageLoss over just the training set:
6 Test errorTest error for categorical outcome:Training error:
7 Goals in model building Model selection:Estimating the performance of different models; choose the best one(2) Model assessment:Estimate the prediction error of the chosen model on new data.
8 Goals in model building Ideally, we’d like to have enough data to be divided into three sets:Training set: to fit the modelsValidation set: to estimate prediction error of models, for the purpose of model selectionTest set: to assess the generalization error of the final modelA typical split:
9 Goals in model building What’s the difference between the validation set and the test set?The validation set is used repeatedly on all models. The model selection can chase the randomness in this set. Our selection of the model is based on this set. In a sense, there is over-fitting in terms of this set, and the error rate is under-estimated.The test set should be protected and used only once to obtain an unbiased error rate.
10 Goals in model building In reality, there’s not enough data. How do people deal with the issue?Eliminate validation set.Draw validation set from training set.Try to achieve generalization error and model selection. (AIC, BIC, cross-validation ……)Sometimes, even omit the test set and final estimation of prediction error; publish the result and leave testing to later studies.
11 Bias-variance trade-off In the continuous outcome case, assumeThe expected prediction error in regression is:
13 Bias-variance trade-off K-nearest neighbor classifier:The higher the k, the lower the model complexity (estimation becomes more global, space partitioned into larger patches)Increase k, the variance term decreases, and the bias term increases. (Here x’s are assumed to be fixed; randomness only in y)
14 Bias-variance trade-off For linear model with p coefficients,Although h(x0) is dependent on x0, its average over sample values is p/NModel complexity is directly associated with p.
16 Bias-variance trade-off An example. 50 observations, 20 predictors, uniformly distributed in the hypercube [0, 1]20Y is 0 if X1 ≤ 1/2 and 1 if X1 > 1/2, and apply k-nearest neighbors.Red: prediction errorGreen: squared biasBlue: variance
17 Bias-variance trade-off An example. 50 observations, 20 predictors, uniformly distributed in the hypercube [0, 1]20Red: prediction errorGreen: squared biasBlue: variance
18 In-sample errorWith limited data, we need to approach testing error (hidden) as much as we can, and/or perform model selection.Two general approaches:AnalyticalAIC, BIC, Cp, ….(2) Resampling-basedCross-validation, bootstrap, jackknife, ……
19 In-sample errorTraining error:This is an under-estimate of the true errorBecause the same data is used to fit the model and assess the error.Err is extra-sample error, because test data points can come from outside the training set.
20 In-sample errorWe will only know Err when we know the population. However, we know only the training sample which is drawn from the population, but not the population itself.In-sample error: obtained when new responses are observed at the same x’s as the training set
21 In-sample erroryPopulationNew sample at same x’sSamplexDefine the optimism asFor squared error, 0-1, and other loss function, it can be shown generally that
22 In-sample errorThe amount by which Err underestimates the true error depends on how strongly yi affects its own prediction.Generally, Errin is a better estimate of the test error than the training error, because the in-sample is a better approximation to the population.So the goal is to estimate the optimism and add it to the training error. (Cp, AIC, BIC work this way for models linear in their parameters.)
25 In-sample errorBIC tends to choose overly simple models when sample size is small; it chooses the correct model when sample size approaches infinity.AIC tends to choose overly complex models when sample size is large.
26 Cross-validationThe goal is to directly estimate the extra-sample error (error on an independent test set)K-fold cross-validation:Split data into K roughly equal-sized partsFor each of the K parts, fit the model with the other K-1 parts, and calculate the prediction error on the part that is left out.
27 Cross-validationThe CV estimate of the prediction error is from the combination of the K estimatesα is the tuning parameter (different models, model parameters)Find that minimizes CV(α)Finally, fit all data on the model
28 Cross-validationCV could substantially over-estimate prediction error, depending on the learning curve.
29 Cross-validationLeave-one-out cross-validation (K=N) is approximately unbiased, yet it has high variance.K=5 or 10, CV has low variance but more bias.If the learning curve has large slope at the training set size, a 5-fold or 10-fold CV can overestimate the prediction error substantially.
31 ? Cross-validation In multi-stage modeling. Example: 5000 genes, 50 normal/50 disease subjects?Select 100 genes that best correlate with disease statusCV error rate: 3%.5-fold CV.The 100 genes don’t change; model parameters are tunedBuild a multivariate predictor using the 100 genes.
32 Cross-validation 5-fold CV Split the data. For each fold – Select 100 genes using 4/5 of the samples.Build a classification model using the 4/5 samples.Predict the other 1/5 samples.
35 BootstrapResample the training set to generate B bootstrap samples.Fit the model on each of the B samples. Examine prediction accuracy for each observation from those models not built from the observation.For example the leave-one-out bootstrap estimate of prediction error is
36 BootstrapReminder: in bootstrap, each sample has the probability of of being selected into a re-sample.Average number of distinct observations in a bootstrap sample is 0.632N.The (upward) bias will behave like a two-fold cross-validation.
37 BootstrapThe estimator can alleviate the biasIntuitively it pulls the upward biased leave-one-out error rate towards the downward biased training set error rate.
38 “Bet on sparsity” principle L1 penalty yields sparse models.L2 penalty yields dense models, and is computationally easy.When underlying model is sparse, L1 penalty does well.When underlying model is dense, and the training data size is not extremely large, neither does well because of the curse of dimensionality.“Use a procedure that does well in sparse problems, since no procedure does well in dense problems”
39 “Bet on sparsity” principle Example,300 predictors,50 observations,Dense scenario:all 300 betas are non-zeroSparse scenario:only 10 betas are non-zero30 betas are non-zero
40 “Bet on sparsity” principle Data generated from dense model – neither do well.
41 “Bet on sparsity” principle Date generated from sparse model – Lasso does well.
42 “Bet on sparsity” principle Date generated from relatively sparse model – Lasso does better than ridge.