Tools and usage
by Krishna Choppella, Dr. Uday Kamath, Boštjan Kaluža, Jennifer L. Reese, Richard M
Machine Learning: End-to-End guide for Java developers
- Machine Learning: End-to-End guide for Java developers
- Table of Contents
- Machine Learning: End-to-End guide for Java developers
- Credits
- Preface
- 1. Module 1
- 1. Getting Started with Data Science
- Problems solved using data science
- Understanding the data science problem - solving approach
- Acquiring data for an application
- The importance and process of cleaning data
- Visualizing data to enhance understanding
- The use of statistical methods in data science
- Machine learning applied to data science
- Using neural networks in data science
- Deep learning approaches
- Performing text analysis
- Visual and audio analysis
- Improving application performance using parallel techniques
- Assembling the pieces
- Summary
- 2. Data Acquisition
- 3. Data Cleaning
- 4. Data Visualization
- 5. Statistical Data Analysis Techniques
- 6. Machine Learning
- 7. Neural Networks
- 8. Deep Learning
- 9. Text Analysis
- 10. Visual and Audio Analysis
- 11. Mathematical and Parallel Techniques for Data Analysis
- 12. Bringing It All Together
- 1. Getting Started with Data Science
- 2. Module 2
- 1. Applied Machine Learning Quick Start
- 2. Java Libraries and Platforms for Machine Learning
- 3. Basic Algorithms – Classification, Regression, and Clustering
- 4. Customer Relationship Prediction with Ensembles
- 5. Affinity Analysis
- 6. Recommendation Engine with Apache Mahout
- 7. Fraud and Anomaly Detection
- 8. Image Recognition with Deeplearning4j
- 9. Activity Recognition with Mobile Phone Sensors
- 10. Text Mining with Mallet – Topic Modeling and Spam Detection
- 11. What is Next?
- A. References
- 3. Module 3
- 1. Machine Learning Review
- Machine learning – history and definition
- What is not machine learning?
- Machine learning – concepts and terminology
- Machine learning – types and subtypes
- Datasets used in machine learning
- Machine learning applications
- Practical issues in machine learning
- Machine learning – roles and process
- Machine learning – tools and datasets
- Summary
- 2. Practical Approach to Real-World Supervised Learning
- Formal description and notation
- Data transformation and preprocessing
- Feature relevance analysis and dimensionality reduction
- Model building
- Model assessment, evaluation, and comparisons
- Case Study – Horse Colic Classification
- Summary
- References
- 3. Unsupervised Machine Learning Techniques
- Issues in common with supervised learning
- Issues specific to unsupervised learning
- Feature analysis and dimensionality reduction
- Clustering
- Outlier or anomaly detection
- Real-world case study
- Summary
- References
- 4. Semi-Supervised and Active Learning
- Semi-supervised learning
- Active learning
- Case study in active learning
- Summary
- References
- 5. Real-Time Stream Machine Learning
- Assumptions and mathematical notations
- Basic stream processing and computational techniques
- Concept drift and drift detection
- Incremental supervised learning
- Incremental unsupervised learning using clustering
- Modeling techniques
- Partition based
- Hierarchical based and micro clustering
- Density based
- Grid based
- Validation and evaluation techniques
- Key issues in stream cluster evaluation
- Evaluation measures
- Cluster Mapping Measures (CMM)
- V-Measure
- Other external measures
- Unsupervised learning using outlier detection
- Case study in stream learning
- Summary
- References
- 6. Probabilistic Graph Modeling
- Probability revisited
- Graph concepts
- Bayesian networks
- Representation
- Inference
- Learning
- Learning parameters
- Learning structures
- Measures to evaluate structures
- Methods for learning structures
- Constraint-based techniques
- Search and score-based techniques
- 7. Deep Learning
- Multi-layer feed-forward neural network
- Inputs, neurons, activation function, and mathematical notation
- Multi-layered neural network
- Structure and mathematical notations
- Activation functions in NN
- Training neural network
- Empirical risk minimization
- Parameter initialization
- Loss function
- Gradients
- Feed forward and backpropagation
- How does it work?
- Regularization
- L2 regularization
- L1 regularization
- Limitations of neural networks
- Deep learning
- Building blocks for deep learning
- Rectified linear activation function
- Restricted Boltzmann Machines
- Autoencoders
- Unsupervised pre-training and supervised fine-tuning
- Deep feed-forward NN
- Deep Autoencoders
- Deep Belief Networks
- Deep learning with dropouts
- Sparse coding
- Convolutional Neural Network
- CNN Layers
- Recurrent Neural Networks
- Building blocks for deep learning
- Case study
- Summary
- References
- 8. Text Mining and Natural Language Processing
- NLP, subfields, and tasks
- Text categorization
- Part-of-speech tagging (POS tagging)
- Text clustering
- Information extraction and named entity recognition
- Sentiment analysis and opinion mining
- Coreference resolution
- Word sense disambiguation
- Machine translation
- Semantic reasoning and inferencing
- Text summarization
- Automating question and answers
- Issues with mining unstructured data
- Text processing components and transformations
- Topics in text mining
- Tools and usage
- Summary
- References
- NLP, subfields, and tasks
- 9. Big Data Machine Learning – The Final Frontier
- What are the characteristics of Big Data?
- Big Data Machine Learning
- Batch Big Data Machine Learning
- Case study
- Business problem
- Machine Learning mapping
- Data collection
- Data sampling and transformation
- Spark MLlib as Big Data Machine Learning platform
- A. Linear Algebra
- B. Probability
- D. Bibliography
- Index
- Empirical risk minimization
- Multi-layer feed-forward neural network
- Modeling techniques
- 1. Machine Learning Review
In this section, we will introduce two tools in Java that are very popular for probabilistic graph modeling.
OpenMarkov is a Java-based tool for PGMs and here is the description from www.openmarkov.org:
Note
OpenMarkov is a software tool for probabilistic graphical models (PGMs) developed by the Research Centre for Intelligent Decision-Support Systems of the UNED in Madrid, Spain.
It has been designed for: editing and evaluating several types of PGMs, such as Bayesian networks, influence diagrams, factored Markov models, and so on, learning Bayesian networks from data interactively, and cost-effectiveness analysis.
OpenMarkov is very good in performing interactive and automated learning from the data. It has capabilities to preprocess the data (discretization using frequency and value) and perform structure and parameter learning using a few search algorithms such as search-based Hill Climbing and score-based PC. OpenMarkov stores the models in a format known as pgmx. To apply the models in most traditional packages there may be a need to convert the pgmx models to XMLBIF format. Various open source tools provide these conversions.
Here we have some screenshots illustrating the usage of OpenMarkov to learn the structure and parameters from the data.
In Figure 20, we see the screen for interactive learning where you select the data file and algorithm to use:
Figure 20. OpenMarkov GUI – Interactive learning, algorithm selection
The next step is the Preprocessing tab (Figure 21) where we can select how discretization is done:
Figure 21. OpenMarkov GUI – Preprocessing screen
Finally, in Figure 22, we see the display of the learned Bayes network structure:
Figure 22. OpenMarkov GUI – Structure output
Weka's Bayes Network editor for interactive and automated learning has a large number of options for Bayes network representation, inference and learning as compared to OpenMarkov. The advantage in using Weka is the availability of a number of well-integrated preprocessing and transformation filters, algorithms, evaluation, and experimental metrics.
In Figure 23, we see the Bayes Network Editor where the search algorithm is selected and various options can be configured:
Figure 23. WEKA Bayes Network – configuring search algorithm
The learned structure and parameters of the BayesNet are shown in the output screen in Figure 24:
Figure 24. WEKA Bayes Network – Learned parameter and structure
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