ternarynet: Ternary Network Estimation

A computational Bayesian approach to ternary gene regulatory network estimation from gene perturbation experiments.

Install the latest version of this package by entering the following in R:
source("https://bioconductor.org/biocLite.R")
biocLite("ternarynet")
AuthorMatthew N. McCall <mccallm@gmail.com>, Anthony Almudevar <Anthony_Almudevar@urmc.rochester.edu>
Bioconductor views CellBiology GraphAndNetwork Software
Date of publicationNone
MaintainerMatthew N. McCall <mccallm@gmail.com>
LicenseGPL (>= 2)
Version1.20.0

View on Bioconductor

Functions

attractorSummary Man page
backupStage Man page
backupStage<- Man page
backupStage<-,ternaryFitParameters-method Man page
backupStage,ternaryFitParameters-method Man page
beta0 Man page
beta0<- Man page
beta0<-,ternaryFitParameters-method Man page
beta0,ternaryFitParameters-method Man page
chi0 Man page
chi0<- Man page
chi0<-,ternaryFitParameters-method Man page
chi0,ternaryFitParameters-method Man page
class:ternaryFit Man page
class:ternaryFitParameters Man page
class:ternaryPost Man page
degreeObjMin Man page
degreeObjMin<- Man page
degreeObjMin<-,ternaryFit-method Man page
degreeObjMin,ternaryFit-method Man page
degreeObjs Man page
degreeObjs<- Man page
degreeObjs<-,ternaryPost-method Man page
degreeObjs,ternaryPost-method Man page
delta Man page
delta<- Man page
delta<-,ternaryFitParameters-method Man page
delta,ternaryFitParameters-method Man page
dim,ternaryFit-method Man page
dim,ternaryPost-method Man page
edgePenalty Man page
edgePenalty<- Man page
edgePenalty<-,ternaryFitParameters-method Man page
edgePenalty,ternaryFitParameters-method Man page
epsilon Man page
epsilon<- Man page
epsilon<-,ternaryFitParameters-method Man page
epsilon,ternaryFitParameters-method Man page
experimentNames Man page
experimentNames<- Man page
experimentNames<-,ternaryFit-method Man page
experimentNames,ternaryFit-method Man page
experimentNames<-,ternaryPost-method Man page
experimentNames,ternaryPost-method Man page
finalTemperature Man page
finalTemperature<- Man page
finalTemperature<-,ternaryFit-method Man page
finalTemperature,ternaryFit-method Man page
geneNames Man page
geneNames<- Man page
geneNames<-,ternaryFit-method Man page
geneNames,ternaryFit-method Man page
geneNames<-,ternaryPost-method Man page
geneNames,ternaryPost-method Man page
graphObjMin Man page
graphObjMin<- Man page
graphObjMin<-,ternaryFit-method Man page
graphObjMin,ternaryFit-method Man page
graphObjs Man page
graphObjs<- Man page
graphObjs<-,ternaryPost-method Man page
graphObjs,ternaryPost-method Man page
graphPosterior Man page
initialize,ternaryFit-method Man page
initialize,ternaryFitParameters-method Man page
initialize,ternaryPost-method Man page
inputParams Man page
inputParams<- Man page
inputParams<-,ternaryFit-method Man page
inputParams,ternaryFit-method Man page
inputParams<-,ternaryPost-method Man page
inputParams,ternaryPost-method Man page
m0 Man page
m0<- Man page
m0<-,ternaryFitParameters-method Man page
m0,ternaryFitParameters-method Man page
maxDegree Man page
maxDegree<- Man page
maxDegree<-,ternaryFitParameters-method Man page
maxDegree,ternaryFitParameters-method Man page
maxStage Man page
maxStage<- Man page
maxStage<-,ternaryFitParameters-method Man page
maxStage,ternaryFitParameters-method Man page
maxTransition Man page
maxTransition<- Man page
maxTransition<-,ternaryFitParameters-method Man page
maxTransition,ternaryFitParameters-method Man page
minScore Man page
minScore<- Man page
minScore<-,ternaryFit-method Man page
minScore,ternaryFit-method Man page
ne Man page
ne<- Man page
neighborDegree Man page
neighborDegree<- Man page
neighborDegree<-,ternaryFitParameters-method Man page
neighborDegree,ternaryFitParameters-method Man page
ne<-,ternaryFitParameters-method Man page
ne,ternaryFitParameters-method Man page
newScore Man page
newScore<- Man page
newScore<-,ternaryFit-method Man page
newScore,ternaryFit-method Man page
pAddParent Man page
pAddParent<- Man page
pAddParent<-,ternaryFitParameters-method Man page
pAddParent,ternaryFitParameters-method Man page
perturbationObj Man page
perturbationObj<- Man page
perturbationObj<-,ternaryFit-method Man page
perturbationObj,ternaryFit-method Man page
perturbationObj<-,ternaryPost-method Man page
perturbationObj,ternaryPost-method Man page
perturbationType Man page
perturbationType<- Man page
perturbationType<-,ternaryFitParameters-method Man page
perturbationType,ternaryFitParameters-method Man page
pExchangeParent Man page
pExchangeParent<- Man page
pExchangeParent<-,ternaryFitParameters-method Man page
pExchangeParent,ternaryFitParameters-method Man page
plotFit Man page
plotPost Man page
plotTraces Man page
pNeighborhood Man page
pNeighborhood<- Man page
pNeighborhood<-,ternaryFitParameters-method Man page
pNeighborhood,ternaryFitParameters-method Man page
predictAttractor Man page
rho Man page
rho<- Man page
rho<-,ternaryFitParameters-method Man page
rho,ternaryFitParameters-method Man page
scores Man page
scores<- Man page
scores<-,ternaryPost-method Man page
scores,ternaryPost-method Man page
scoreType Man page
scoreType<- Man page
scoreType<-,ternaryFitParameters-method Man page
scoreType,ternaryFitParameters-method Man page
show,ternaryFit-method Man page
show,ternaryFitParameters-method Man page
show,ternaryPost-method Man page
simulateSteadyState Man page
stageCount Man page
stageCount<- Man page
stageCount<-,ternaryFit-method Man page
stageCount,ternaryFit-method Man page
steadyStateObj Man page
steadyStateObj<- Man page
steadyStateObj<-,ternaryFit-method Man page
steadyStateObj,ternaryFit-method Man page
steadyStateObj<-,ternaryPost-method Man page
steadyStateObj,ternaryPost-method Man page
tableObjMin Man page
tableObjMin<- Man page
tableObjMin<-,ternaryFit-method Man page
tableObjMin,ternaryFit-method Man page
tableObjs Man page
tableObjs<- Man page
tableObjs<-,ternaryPost-method Man page
tableObjs,ternaryPost-method Man page
ternaryFit Man page
ternaryFit-class Man page
ternaryFit-methods Man page
ternaryFitParameters Man page
ternaryFitParameters-class Man page
ternaryFitParameters-methods Man page
ternaryPost Man page
ternaryPost-class Man page
ternaryPost-methods Man page
tnetfit Man page
tnetpost Man page
traces Man page
traces<- Man page
traces<-,ternaryFit-method Man page
traces,ternaryFit-method Man page
xSeed Man page
xSeed<- Man page
xSeed<-,ternaryFit-method Man page
xSeed,ternaryFit-method Man page

Questions? Problems? Suggestions? or email at ian@mutexlabs.com.

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