The Joint Graphical Lasso is a generalized method for estimating Gaussian graphical models/ sparse inverse covariance matrices/ biological networks on multiple classes of data. We solve JGL under two penalty functions: The Fused Graphical Lasso (FGL), which employs a fused penalty to encourage inverse covariance matrices to be similar across classes, and the Group Graphical Lasso (GGL), which encourages similar network structure between classes. FGL is recommended over GGL for most applications.

Author | Patrick Danaher |

Date of publication | 2013-04-16 21:27:09 |

Maintainer | Patrick Danaher <pdanaher@uw.edu> |

License | GPL-2 |

Version | 2.3 |

**crit:** Calculate the critical value of the FGL objective funciton.

**example.data:** Toy two-class gene expression dataset.

**gcrit:** Calculate the critical value of the GGL objective funciton.

**JGL:** Joint Graphical Lasso

**JGL-internal:** Internal JGL functions

**JGL-package:** Joint Graphical Lasso

**net.degree:** List the degree of every node in all classes.

**net.edges:** List the edges in a network

**net.hubs:** Get degrees of most connected nodes.

**net.neighbors:** Get network neighbors of a node

**screen.fgl:** Quickly identify connected features in the solution to FGL

**screen.ggl:** Quickly identify connected features in the solution to GGL

**subnetworks:** Identify subnetwork membership

JGL

JGL/MD5

JGL/data

JGL/data/example.data.rda

JGL/man

JGL/man/crit.Rd
JGL/man/screen.ggl.Rd
JGL/man/JGL-internal.Rd
JGL/man/net.degree.Rd
JGL/man/gcrit.Rd
JGL/man/example.data.Rd
JGL/man/JGL.Rd
JGL/man/net.hubs.Rd
JGL/man/screen.fgl.Rd
JGL/man/subnetworks.Rd
JGL/man/net.neighbors.Rd
JGL/man/JGL-package.Rd
JGL/man/net.edges.Rd
JGL/R

JGL/R/admm.iters.r

JGL/R/net.edges.R
JGL/R/screen.fgl.R
JGL/R/make.adj.matrix.R
JGL/R/penalty.as.matrix.R
JGL/R/gcrit.R
JGL/R/admm.iters.unconnected.r

JGL/R/subnetworks.R
JGL/R/flsa2.R
JGL/R/crit.R
JGL/R/screen.ggl.R
JGL/R/soft.R
JGL/R/net.degree.R
JGL/R/flsa.general.R
JGL/R/JGL.r

JGL/R/net.neighbors.R
JGL/R/net.hubs.R
JGL/R/dsgl.R
JGL/DESCRIPTION

JGL/NAMESPACE

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