simPATHy (version 0.6)

A Method for Simulating Data from Perturbed Biological Pathways

Description

Simulate data from a Gaussian graphical model or a Gaussian Bayesian network in two conditions. Given a covariance matrix of a reference condition simulate plausible disregulations. See Salviato et al. (2017) .

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Version

Install

install.packages('simPATHy')

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Version

0.6

License

AGPL-3

Maintainer

Elisa Salviato

Last Published

November 23rd, 2021

Functions in simPATHy (0.6)

plotCorGraph

Plot correlation or partial correlation matrix

simPATHy

Simulate data from a graphical model

plotGraphNELD3

Dynamic plot of a graph

makePositiveDefinite

Positive definite matrix

chimera

Chimera data

SMLEdecomposable

Local Maximum Likelihood Estimation

getPathShiny

Choose a path in a graph from an interactive shiny app

graphNELD3-shiny

Shiny bindings for plotGraphNELD3

fitSgraph

Estimate covariance matrix of a graphical model

generatePath

Find one path in a graph

easyLookDys

Dysregulation summary

easyLookShiny

Visual dysregulation summary