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equSA (version 1.2.1)

Learning High-Dimensional Graphical Models

Description

Provides an equivalent measure of partial correlation coefficients for high-dimensional Gaussian Graphical Models to learn and visualize the underlying relationships between variables from single or multiple datasets. You can refer to Liang, F., Song, Q. and Qiu, P. (2015) for more detail. Based on this method, the package also provides the method for constructing networks for Next Generation Sequencing Data, jointly estimating multiple Gaussian Graphical Models, constructing single graphical model for heterogeneous dataset, inferring graphical models from high-dimensional missing data and estimating moral graph for Bayesian network.

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Version

Install

install.packages('equSA')

Monthly Downloads

86

Version

1.2.1

License

GPL-2

Maintainer

Bochao Jia

Last Published

May 5th, 2019

Functions in equSA (1.2.1)

SR0

One example dataset for \(\psi\)-learning alogorithm
plotGraph

Plot Single Network
DAGsim

Simulate a directed acyclic graph with mixed data (gaussian and binary)
ContTran

A data continuized transformation
plearn.struct

Infer network structure for mixed types of random variables.
SimHetDat

Simulate Heterogeneous Data for Gaussian Graphical Models
Cont2Gaus

A transfomation from count data into Gaussian data
ContSim

A simulation method for generating count data from multivariate Zero-Inflated Negative Binomial distributions
equSA-package

Graphical model has been widely used in many scientific fileds to describe the conditional independent relationships for a large set of random variables. Through this package, we provide tools to learn structure for undirected graph (Markov Random Field) and moral graph for directed acyclic graph (Bayesian Network).
alarm

One example dataset for \(p\)-plearning algorithm.
SimMNR

Simulate Data for high-dimensional inference
GraphIRO

Learning high-dimensional Gaussian Graphical Models with Missing Observations.
JGGM

Joint estimation of Multiple Gaussian Graphical Models
count

An example of count dataset for constructing network
diffR

Detect difference between two networks.
equSAR

An equvalent mearsure of partial correlation coeffients
combineR

Combine two networks.
TR0

One example dataset for \(\psi\)-learning alogorithm
solcov

Calculate covariance matrix and precision matrix
plotJGraph

Plot Networks
pcorselR

Multiple hypothesis test
plearn.moral

Learning Moral graph based on \(p\)-learning algorithm.
psical

A calculation of \(\psi\) scores.
GGMM

Learning high-dimensional Gaussian Graphical Models with Heterogeneous Data.
SimGraDat

Simulate Incomplete Data for Gaussian Graphical Models
JMGM

Joint Mixed Graphical Models
GauSim

Simulate centered Gaussian data from multiple types of structures.
Mulpval

Multiple hypothesis tests for \(p\) values
MNR

Markov Neighborhood Regression for High-Dimensional Inference.