# STRUctural Modeling of Latent Variables for General Pedigree

## Documentation for package ‘strum’ version 0.6.2

- DESCRIPTION file.
- User guides, package vignettes and other documentation.

## Help Pages

A C D E F H I M P R S T V misc

strum-package | A Package for STRUctural Modeling of Latent Variables for General Pedigree Data

## -- A --

allRandomEffects | Class '"strumVirtualModel"'
allRandomEffects-method | Class '"strumVirtualModel"'
allRandomEffects<- | Class '"strumVirtualModel"'
allRandomEffects<--method | Class '"strumVirtualModel"'
ascertainment | Class '"strumVirtualModel"'
ascertainment-method | Class '"strumVirtualModel"'
ascertainment<- | Class '"strumVirtualModel"'
ascertainment<--method | Class '"strumVirtualModel"'

## -- C --

coding | Class '"strumMarker"'
coding-method | Class '"strumMarker"'
coding<- | Class '"strumMarker"'
coding<--method | Class '"strumMarker"'
covariatePhenotypes | Class '"strumVirtualModel"'
covariatePhenotypes-method | Class '"strumVirtualModel"'
createSimModel | Create strumSimModel Object
createStrumData | Create strumData Object
createStrumMarker | Create strumMarker Object
createStrumModel | Create strumModel Object

## -- D --

dataType | Class '"strumData"'
dataType-method | Class '"strumData"'
dataType<- | Class '"strumData"'
dataType<--method | Class '"strumData"'
dataVals | Class '"strumData"'
dataVals-method | Class '"strumData"'
dataVals<- | Class '"strumData"'
dataVals<--method | Class '"strumData"'

## -- E --

errorRate | Class '"strumMarker"'
errorRate-method | Class '"strumMarker"'
errorRate<- | Class '"strumMarker"'
errorRate<--method | Class '"strumMarker"'

## -- F --

fittedParameters | Class '"strumFittedModel"'
fittedParameters-method | Class '"strumFittedModel"'
fittedParameters<- | Class '"strumFittedModel"'
fittedParameters<--method | Class '"strumFittedModel"'
fittedParametersCovMatrix | Class '"strumFittedModel"'
fittedParametersCovMatrix-method | Class '"strumFittedModel"'
fittedParametersCovMatrix<- | Class '"strumFittedModel"'
fittedParametersCovMatrix<--method | Class '"strumFittedModel"'
formulas | Class '"strumVirtualModel"'
formulas-method | Class '"strumVirtualModel"'
formulas<- | Class '"strumVirtualModel"'
formulas<--method | Class '"strumVirtualModel"'

## -- H --

haplotypes | Class '"strumMarker"'
haplotypes-method | Class '"strumMarker"'
haplotypes<- | Class '"strumMarker"'
haplotypes<--method | Class '"strumMarker"'

## -- I --

ibd | Class '"strumData"'
ibd-method | Class '"strumData"'
ibdMarker | Class '"strumIBD"'
ibdMarker-method | Class '"strumIBD"'
ibdMarker<- | Class '"strumIBD"'
ibdMarker<--method | Class '"strumIBD"'
ibdMatrix | Class '"strumIBD"'
ibdMatrix-method | Class '"strumIBD"'
ibdMatrix<- | Class '"strumIBD"'
ibdMatrix<--method | Class '"strumIBD"'
importHapmapData | Import Hapmap Data
importIBD | Class '"strumData"'
importIBD-method | Class '"strumData"'
intervalIBD | Class '"strumMarker"'
intervalIBD-method | Class '"strumMarker"'
intervalIBD<- | Class '"strumMarker"'
intervalIBD<--method | Class '"strumMarker"'

## -- M --

markerFacts | Class '"strumMarker"'
markerFacts-method | Class '"strumMarker"'
markerFacts<- | Class '"strumMarker"'
markerFacts<--method | Class '"strumMarker"'
markerInfo | Class '"strumSimModel"'
markerInfo-method | Class '"strumSimModel"'
markerInfo<- | Class '"strumSimModel"'
markerInfo<--method | Class '"strumSimModel"'
missingRate | Class '"strumMarker"'
missingRate-method | Class '"strumMarker"'
missingRate<- | Class '"strumMarker"'
missingRate<--method | Class '"strumMarker"'
mutationRate | Class '"strumMarker"'
mutationRate-method | Class '"strumMarker"'
mutationRate<- | Class '"strumMarker"'
mutationRate<--method | Class '"strumMarker"'

## -- P --

paramNames | Class '"strumVirtualModel"'
paramNames-method | Class '"strumVirtualModel"'
paramNames<- | Class '"strumVirtualModel"'
paramNames<--method | Class '"strumVirtualModel"'
phi | Class '"strumData"'
phi-method | Class '"strumData"'
phi<- | Class '"strumData"'
phi<--method | Class '"strumData"'
plot-method | Class '"strumModel"'
plot-method | Class '"strumSimModel"'
plot-method | Class '"strumVirtualModel"'
populationRecombRate | Class '"strumMarker"'
populationRecombRate-method | Class '"strumMarker"'
populationRecombRate<- | Class '"strumMarker"'
populationRecombRate<--method | Class '"strumMarker"'

## -- R --

returnIBD | Class '"strumMarker"'
returnIBD-method | Class '"strumMarker"'
returnIBD<- | Class '"strumMarker"'
returnIBD<--method | Class '"strumMarker"'

## -- S --

show-method | Class '"strumData"'
show-method | Class '"strumFittedModel"'
show-method | Class '"strumIBD"'
show-method | Class '"strumMarker"'
show-method | Class '"strumModel"'
show-method | Class '"strumSimModel"'
show-method | Class '"strumVirtualModel"'
simulateStrumData | Simulate strumData Object
strum | STRUctural Modeling of Latent Variables for Family Data
strumData-class | Class '"strumData"'
strumFittedModel-class | Class '"strumFittedModel"'
strumIBD-class | Class '"strumIBD"'
strumMarker-class | Class '"strumMarker"'
strumModel-class | Class '"strumModel"'
strumSimModel-class | Class '"strumSimModel"'
strumVirtualModel-class | Class '"strumVirtualModel"'

## -- T --

traitMissingRate | Class '"strumSimModel"'
traitMissingRate-method | Class '"strumSimModel"'
traitMissingRate<- | Class '"strumSimModel"'
traitMissingRate<--method | Class '"strumSimModel"'

## -- V --

varList | Class '"strumVirtualModel"'
varList-method | Class '"strumVirtualModel"'
varList<- | Class '"strumVirtualModel"'
varList<--method | Class '"strumVirtualModel"'

## -- misc --

$-method | Class '"strumData"'
$<--method | Class '"strumData"'
[-method | Class '"strumData"'
[<--method | Class '"strumData"'
[[-method | Class '"strumData"'
[[<--method | Class '"strumData"'