Perform JIVE Decomposition for Multi-Source Data
BRCA TCGA Dataset
Predict JIVE scores for new data
JIVE Decomposition for Multi-source Data
Calculate Number of Free Parameters for BIC Calculation
Create Plots for a JIVE Object
Perform JIVE Decompositions for Multi-Source Data
Draw a Heatmap from a Matrix
Heatmaps for JIVE Decompositions
Principal Component Plots for JIVE Decomposition
Display Variance Explained
Summarize a JIVE Decomposition
Missing Data SVD
Wrapper Function to Perform SVD
Performs the Joint and Individual Variation Explained (JIVE) decomposition on a list of data sets when the data share a dimension, returning low-rank matrices that capture the joint and individual structure of the data [O'Connell, MJ and Lock, EF (2016) <doi:10.1093/bioinformatics/btw324>]. It provides two methods of rank selection when the rank is unknown, a permutation test and a Bayesian Information Criterion (BIC) selection algorithm. Also included in the package are three plotting functions for visualizing the variance attributed to each data source: a bar plot that shows the percentages of the variability attributable to joint and individual structure, a heatmap that shows the structure of the variability, and principal component plots.