Course Notes

1.     STOR881-01-11-2024.pptx:  Organizational Matters, OODA Book, What is OODA?, Taste of OODA Examples (including Spanish Male Mortality, Amplitude – Phase, Shapes, Sounds, Faces), 3 Major Phases of OODA, Projections, Scatterplot Matrices, Trait by Trait Views.
2.    STOR881-01-16-2024.pptx:  Principal Component Analysis (PCA), Object Space – Trait Space, Scree Plots, Define Modes of Variation, Prob. Dist’ns as data objects, PCA Toy & Real Examples, Shifted Parabolas Data.
3.   STOR881-01-18-2024.pptx:   Lung Cancer Data, Limitations of PCA: Apple, Banana, Pear, NCI-60 Data, Caution about DWD, Inference using DiProPerm.
4.   STOR881-01-23-2024.pptx:  OODA Terminology, Marginal Distribution Plots, Marginal Distribution Plot Analysis of Drug Discovery Data, Normalization and Correlation PCATransformations.
5.  STOR881-01-25-2024.pptx:  Transformations, Melanoma Data, Automatic Shifted Log Transformation, ROC Curve to Quantify Impact of Transformation on Gene Expression Data, Heatmap Data Visualization.
6.  STOR881-01-30-2024.pptx:  Other Directions for Scatterplot Views, Centering, Details of PCA, Review Linear Algebra, Covariance Matrices, PCA as Optimization.
7.  STOR881-02-01-2024.pptx:  Alternate Viewpoints of PCA (Data Representation, Distribution of Energy, Simulation, Comparison to SVD), Distance Methods, Distance Based Centers, Multidimensional Scaling, Shapes as Data Objects, Shape Representations (Landmark, Boundary, Shape).
8.  STOR881-02-06-2024.pptx: Male Pelvis Data, Manifold Data, Directional Data, S-rep Analysis, Principal Geodesic Analysis.  Sara Peterson – Joint Dimension Reduction for Integrated Tumor/Model Pairs
9.  STOR881-02-08-2024.pptx: Principal Nested Spheres, Polysphere PCA, Scaled Torus PCA, Nonnegative Nested Cone Analysis Principal Curves and Surfaces, General Motivation for Backwards Methods.  Teresa McGhee – QTl Mapping With Mediation
10.  STOR881-02-13-2024.pptx:  No Class, Wellness Day
11.  STOR881-02-15-2024.pptx:  Principal Curves and Surfaces, General Motivation for Backwards Methods, Curve Registration, Shifted Betas Example, Amplitude and Phase Modes of Variation.  Victoria Sagasta Pereira – MMM
12.  STOR881-02-20-2024.pptx: Amplitude and Phase Modes of Variation, Fisher-Rao Curve Estimation, Principal Nested Spheres on SRVF Sphere.  Michael Nisenzon –
    
13.  STOR881-02-22-2024.pptx: Principal Nested Spheres on SRVF Sphere, Juggling Data, Data Integration, Partial Least Squares.  Hyeon Lee – Tree PCA
14.  STOR881-02-27-2024.pptx:  Canonical Correlation Analysis, Angle Based Joint and Individual Variation Explained (AJIVE), FMRI Data, AJIVE Algorithm.  Katelyn McInerney – Object Oriented Perspective on Genome Types
15.  STOR881-02-29-2024.pptx: AJIVE Algorithm and Diagnostics, Breast Cancer Images and Genomics, Multiple Genomics in Breast Cancer, Amplification Adjustment in Single Cell RNAseq, Data Integration Via Analysis of Subspaces (DIVAS).  Andrew Walker – Multiplex IF Image Analysis
16.  STOR881-03-05-2024.pptx:  Data Integration Via Analysis of Subspaces (DIVAS), DIVAS Toy Example, DIVAS on TCGA Data, High Dimension Low Sample Size (HDLSS) Analysis.  Enes Kelestemur – Drug Discovery
17.  STOR881-03-07-2024.pptx:   High Dimension Low Sample Size (HDLSS) Analysis, Explanation of DWD Visualization, Technical Assumptions, Zero Covarince is Not Independence, Mixing Conditions, HDLSS Analysis of PCA, HDLSS Explanation of Earlier Observations.  Shiying Li – Optimal transport-based embeddings
18.  STOR881-03-12-2024.pptx:  No Class, Spring Break
19.  STOR881-03-14-2024.pptx:  No Class, Spring Break
20.  STOR881-03-19-2024.pptx:  Introduction to Random Matrix Theory, Macenko-Pastur Distribution, K-Means Clustering,  Gilbert Giri – Evolution of Gene Regulation
    
21.  STOR881-03-21-2024.pptx:  K-Means Clustering, Hierarchical Clustering, SigClust.  Tianzhu Liu – Topics Related to Optimization
22.  STOR881-03-26-2024.pptx:  SigClust, Smoothing, Kernel Density Estimation.  Kendall Thomas – Comprehensive Female Athlete Health & Performance Monitoring
    
23.  STOR881-03-28-2024.pptx:  No Class, Wellness Day
    
24.  STOR881-04-02-2024.pptx: Scatterplot Smoothing, SiZer, P-P & Q-Q Plots.  Kyung Rok Kim – ?
25.  STOR881-04-04-2024.pptx: Q-Q Envelopes, Outliers in OODA, Robustness, Multivariate Median, Spherical PCA.  Ameer Qaqish – Gaussian Processes
26.  STOR881-04-09-2024.pptx:  Cornea Data, Elliptical PCA, GWAS Data, Classfication – Discrimination.
    
27.  STOR881-04-11-2024.pptx: Linear Discriminant Analysis (non-parametric and likelihood derivations), HDLSS Classification.  Qichen Wang – Breast Cancer Epidemiology Study
28.  STOR881-04-16-2024.pptx:  Maximal Data Piling, Kernel Embedding.  Yuhao Zhou – Causal Graphical Models
    
29.  STOR881-04-18-2024.pptx: Kernel Embedding and PCA, t-SNE Visualization, Support Vector Machine, SVM Tuning and Extensions, Distance Weighted Discrimination.  Jason Hu – ???
30.  STOR881-04-23-2024.pptx: Distance Weighted Discrimination, DWD Simulations, Compare DWD, SVM and MD Visualizations, DWD Batch Adjustment, DWD Source & Batch Adjustment, NCI-60 Data, Why not Adjust by Means?, Robust DWD.  Charles Zhao – ???
31.  STOR881-04-25-2024.pptx:  Generalized DWD, Radial DWD, Independent Component Analysis.  Yu Chen – FMRI Clustering
    
32.  STOR881-04-30-2024.pptx:  Tree Structured Data Objects, Topological Data Analysis.  Ashley Buck – phenotyping gait biomechanics in knee osteoarthritis

 

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