Sparse Gaussian Graphical Model Estimation, Visualization and Evaluation

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Documentation for package ‘JointNets’ version 1.0.0

Help Pages

aal116coordinates AAL116 brain atlas coordinates in MNI space
ABIDE_aal116_timeseries ABIDE I preprocessed time series grouped by control and autism and partitioned by AAL116 atlas
add_name_to_out helper function to add row/col names to JointNets precision matrix output To help label igraph object in returngraph and plot
AUC return AUC score for JointNets method
BIC calculate BIC score for JointNets method
cancer Microarray data set for breast cancer
diffee Fast and Scalable Learning of Sparse Changes in High-Dimensional Gaussian Graphical Model Structure
diffeek Fast and Scalable Estimator for Using Additional Knowledge in Learning Sparse Structure Change of High Dimensional of Sparse Changes in High-Dimensional Gaussian Graphical Models
exampleData A simulated toy dataset that includes 2 data matrices (from 2 related tasks).
exampleDataGraph A simulated toy dataset that includes 3 igraph objects
F1 Compute F1 score for JointNets result
F1.diffee computes F1 score for jointnet result
F1.diffeek computes F1 score for jointnet result
F1.fasjem computes F1 score for jointnet result
F1.jeek computes F1 score for jointnet result
F1.simule computes F1 score for jointnet result
F1.wsimule computes F1 score for jointnet result
fasjem A Fast and Scalable Joint Estimator for Learning Multiple Related Sparse Gaussian Graphical Models
generateSampleList function to generate a list of samples from simulatedGraph result
generateSamples function to generate samples from a single precision matrix
jeek A Fast and Scalable Joint Estimator for Integrating Additional Knowledge in Learning Multiple Related Sparse Gaussian Graphical Models
jointplot core function to plot
nip_37_data NIPS word count dataset
plot.diffee plot diffee result specified by user input
plot.diffeek plot diffeek result specified by user input
plot.fasjem Plot fasjem result specified by user input
plot.jeek Plot jeek result specified by user input
plot.simulation Plot simulatedgraph result (generated from function simulation()) (class simulation)
plot.simule Plot simule result specified by user input
plot.wsimule Plot wsimule result specified by user input
plotbrain plot 3d brain network from JointNets result
plotbrain.diffee plot 3d brain network from diffee result
plotbrain.diffeek plot 3d brain network from diffeek result
plotbrain.fasjem plot 3d brain network from fasjem result
plotbrain.jeek plot 3d brain network from jeek result
plotbrain.simule plot 3d brain network from simule result
plotbrain.wsimule plot 3d brain network from wsimule result
plotbrain_joint plot 3d brain network
plot_gui GUI of JointNets plot
returngraph return igraph object from jointnet result specified by user input
returngraph.diffee return igraph object from diffee result specified by user input
returngraph.diffeek return igraph object from diffee result specified by user input
returngraph.fasjem return igraph object from fasjem result specified by user input
returngraph.jeek return igraph object from jeek result specified by user input
returngraph.simulation return igraph object from simulation result specified by user input
returngraph.simule return igraph object from simule result specified by user input
returngraph.wsimule return igraph object from wsimule result specified by user input
simulateGraph function to simulate multiple sparse graphs
simulation simulate multiple sparse graphs and generate samples
simule A constrained l1 minimization approach for estimating multiple Sparse Gaussian or Nonparanormal Graphical Models Estimate multiple, related sparse Gaussian or Nonparanormal graphical
wsimule A constrained and weighted l1 minimization approach for estimating multiple Sparse Gaussian or Nonparanormal Graphical Models