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qtlnet (version 1.3.6)

Causal Inference of QTL Networks

Description

Functions to Simultaneously Infer Causal Graphs and Genetic Architecture

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Version

Install

install.packages('qtlnet')

Monthly Downloads

202

Version

1.3.6

License

GPL (>= 2)

Maintainer

Brian S Yandell

Last Published

March 14th, 2014

Functions in qtlnet (1.3.6)

qdg.sem

Score directed graphs outputed by qdg using structural equation models (SEM)

parents.qtlnet

Determine and group node-parent combinations.

graphviz.qtlnet

qtlnet plot using Rgraphviz

dist.qtlnet

QTL network diagnostic routines

subset.qtlnet

Catenate or subset qtlnet object(s).

plot.qdg

Plot a directed graph

cyclicb

Cyclic graph (b) example

write.qtlnet

write qtlnet as text file

bic.qtlnet

Pre-compute BIC values for qtlnet sampling.

loci.qtlnet

QTL architecture per node as list

igraph.qtlnet

qtlnet plot using igraph

glxnet

Generate and graph Glx network

Pscdbp

Cross and qtlnet objects with Ghazalpour et al. (2006) data. Only 13 phenotypes are included.

mcmc.qtlnet

Sample genetic architecture and QTL network

generate.qtl

Generate QTLs ane phenotypes from cross object

qdg.perm.test

Conduct permutation test for LOD score of edge direction on directed graph

acyclic

Acyclic graph example

summary.qtlnet

summary of model average network and posterior table

qdg

Produces a directed graph using QDG algorithm

cyclica

Cyclic graph (a) example

cyclicc

Cyclic graph (c) example

parallel.qtlnet

Code to parallelize use of qtlnet