A modelling approach to the analysis of complex survey data
- Authors: Dlangamandla, Olwethu
- Date: 2021-10-29
- Subjects: Sampling (Statistics) , Linear models (Statistics) , Multilevel models (Statistics) , Logistic regression analysis , Complex survey data
- Language: English
- Type: Master's theses , text
- Identifier: http://hdl.handle.net/10962/192955 , vital:45284
- Description: Surveys are an essential tool for collecting data and most surveys use complex sampling designs to collect the data. Complex sampling designs are used mainly to enhance representativeness in the sample by accounting for the underlying structure of the population. This often results in data that are non-independent and clustered. Ignoring complex design features such as clustering, stratification, multistage and unequal probability sampling may result in inaccurate and incorrect inference. An overview of, and difference between, design-based and model-based approaches to inference for complex survey data has been discussed. This study adopts a model-based approach. The objective of this study is to discuss and describe the modelling approach in analysing complex survey data. This is specifically done by introducing the principle inference methods under which data from complex surveys may be analysed. In particular, discussions on the theory and methods of model fitting for the analysis of complex survey data are presented. We begin by discussing unique features of complex survey data and explore appropriate methods of analysis that account for the complexity inherent in the survey data. We also explore the widely applied logistic regression modelling of binary data in a complex sample survey context. In particular, four forms of logistic regression models are fitted. These models are generalized linear models, multilevel models, mixed effects models and generalized linear mixed models. Simulated complex survey data are used to illustrate the methods and models. Various R packages are used for the analysis. The results presented and discussed in this thesis indicate that a logistic mixed model with first and second level predictors has a better fit compared to a logistic mixed model with first level predictors. In addition, a logistic multilevel model with first and second level predictors and nested random effects provides a better fit to the data compared to other logistic multilevel fitted models. Similar results were obtained from fitting a generalized logistic mixed model with first and second level predictor variables and a generalized linear mixed model with first and second level predictors and nested random effects. , Thesis (MSC) -- Faculty of Science, Statistics, 2021
- Full Text:
- Date Issued: 2021-10-29
- Authors: Dlangamandla, Olwethu
- Date: 2021-10-29
- Subjects: Sampling (Statistics) , Linear models (Statistics) , Multilevel models (Statistics) , Logistic regression analysis , Complex survey data
- Language: English
- Type: Master's theses , text
- Identifier: http://hdl.handle.net/10962/192955 , vital:45284
- Description: Surveys are an essential tool for collecting data and most surveys use complex sampling designs to collect the data. Complex sampling designs are used mainly to enhance representativeness in the sample by accounting for the underlying structure of the population. This often results in data that are non-independent and clustered. Ignoring complex design features such as clustering, stratification, multistage and unequal probability sampling may result in inaccurate and incorrect inference. An overview of, and difference between, design-based and model-based approaches to inference for complex survey data has been discussed. This study adopts a model-based approach. The objective of this study is to discuss and describe the modelling approach in analysing complex survey data. This is specifically done by introducing the principle inference methods under which data from complex surveys may be analysed. In particular, discussions on the theory and methods of model fitting for the analysis of complex survey data are presented. We begin by discussing unique features of complex survey data and explore appropriate methods of analysis that account for the complexity inherent in the survey data. We also explore the widely applied logistic regression modelling of binary data in a complex sample survey context. In particular, four forms of logistic regression models are fitted. These models are generalized linear models, multilevel models, mixed effects models and generalized linear mixed models. Simulated complex survey data are used to illustrate the methods and models. Various R packages are used for the analysis. The results presented and discussed in this thesis indicate that a logistic mixed model with first and second level predictors has a better fit compared to a logistic mixed model with first level predictors. In addition, a logistic multilevel model with first and second level predictors and nested random effects provides a better fit to the data compared to other logistic multilevel fitted models. Similar results were obtained from fitting a generalized logistic mixed model with first and second level predictor variables and a generalized linear mixed model with first and second level predictors and nested random effects. , Thesis (MSC) -- Faculty of Science, Statistics, 2021
- Full Text:
- Date Issued: 2021-10-29
Prediction of protein secondary structure using binary classificationtrees, naive Bayes classifiers and the Logistic Regression Classifier
- Eldud Omer, Ahmed Abdelkarim
- Authors: Eldud Omer, Ahmed Abdelkarim
- Date: 2016
- Subjects: Bayesian statistical decision theory , Logistic regression analysis , Biostatistics , Proteins -- Structure
- Language: English
- Type: Thesis , Masters , MSc
- Identifier: vital:5581 , http://hdl.handle.net/10962/d1019985
- Description: The secondary structure of proteins is predicted using various binary classifiers. The data are adopted from the RS126 database. The original data consists of protein primary and secondary structure sequences. The original data is encoded using alphabetic letters. These data are encoded into unary vectors comprising ones and zeros only. Different binary classifiers, namely the naive Bayes, logistic regression and classification trees using hold-out and 5-fold cross validation are trained using the encoded data. For each of the classifiers three classification tasks are considered, namely helix against not helix (H/∼H), sheet against not sheet (S/∼S) and coil against not coil (C/∼C). The performance of these binary classifiers are compared using the overall accuracy in predicting the protein secondary structure for various window sizes. Our result indicate that hold-out cross validation achieved higher accuracy than 5-fold cross validation. The Naive Bayes classifier, using 5-fold cross validation achieved, the lowest accuracy for predicting helix against not helix. The classification tree classifiers, using 5-fold cross validation, achieved the lowest accuracies for both coil against not coil and sheet against not sheet classifications. The logistic regression classier accuracy is dependent on the window size; there is a positive relationship between the accuracy and window size. The logistic regression classier approach achieved the highest accuracy when compared to the classification tree and Naive Bayes classifiers for each classification task; predicting helix against not helix with accuracy 77.74 percent, for sheet against not sheet with accuracy 81.22 percent and for coil against not coil with accuracy 73.39 percent. It is noted that it is easier to compare classifiers if the classification process could be completely facilitated in R. Alternatively, it would be easier to assess these logistic regression classifiers if SPSS had a function to determine the accuracy of the logistic regression classifier.
- Full Text:
- Date Issued: 2016
- Authors: Eldud Omer, Ahmed Abdelkarim
- Date: 2016
- Subjects: Bayesian statistical decision theory , Logistic regression analysis , Biostatistics , Proteins -- Structure
- Language: English
- Type: Thesis , Masters , MSc
- Identifier: vital:5581 , http://hdl.handle.net/10962/d1019985
- Description: The secondary structure of proteins is predicted using various binary classifiers. The data are adopted from the RS126 database. The original data consists of protein primary and secondary structure sequences. The original data is encoded using alphabetic letters. These data are encoded into unary vectors comprising ones and zeros only. Different binary classifiers, namely the naive Bayes, logistic regression and classification trees using hold-out and 5-fold cross validation are trained using the encoded data. For each of the classifiers three classification tasks are considered, namely helix against not helix (H/∼H), sheet against not sheet (S/∼S) and coil against not coil (C/∼C). The performance of these binary classifiers are compared using the overall accuracy in predicting the protein secondary structure for various window sizes. Our result indicate that hold-out cross validation achieved higher accuracy than 5-fold cross validation. The Naive Bayes classifier, using 5-fold cross validation achieved, the lowest accuracy for predicting helix against not helix. The classification tree classifiers, using 5-fold cross validation, achieved the lowest accuracies for both coil against not coil and sheet against not sheet classifications. The logistic regression classier accuracy is dependent on the window size; there is a positive relationship between the accuracy and window size. The logistic regression classier approach achieved the highest accuracy when compared to the classification tree and Naive Bayes classifiers for each classification task; predicting helix against not helix with accuracy 77.74 percent, for sheet against not sheet with accuracy 81.22 percent and for coil against not coil with accuracy 73.39 percent. It is noted that it is easier to compare classifiers if the classification process could be completely facilitated in R. Alternatively, it would be easier to assess these logistic regression classifiers if SPSS had a function to determine the accuracy of the logistic regression classifier.
- Full Text:
- Date Issued: 2016
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