⚠️There's a newer version (2.5-10) of this package.Take me there.

arf3DS4 (version 2.5-3)

Activated Region Fitting, fMRI data analysis (3D).

Description

Activated Region Fitting (ARF) is an analysis method for fMRI data.

Copy Link

Version

Install

install.packages('arf3DS4')

Monthly Downloads

Version

2.5-3

License

GPL-2

Maintainer

Wouter D Weeda

Last Published

October 25th, 2011

Functions in arf3DS4 (2.5-3)

experiment-class

arf3DS4 "experiment" class

fitRange

Fit a range of models.

arfversion

Check the version of ARF objects.

getModelAtlas

Get Atlas Labels for an ARF model.

loadModel

Load an ARF model

loadFunc

Load functional data for a single run of a condition.

makeLowResStruct

Make low resolution structural image from high resolution T1 image.

loadStart

Save/load ARF starting values

mcpCorrect

Calculate Multiple Comparison Corrections

nifti.fileinfo-class

arf3DS4 "nifti.fileinfo" class

nifti.header-class

arf3DS4 "nifti.header" class

saveModelBin

Save ARF model estimates to a NIFTI file.

saveModel

Save a model object

saveFunc

Save functional object.

setRegParams

Set the registration parameters.

readData

read in a NIFTI/ANALYZE file.

sequence-class

arf3DS4 "sequence" class

makeROImask

Mask an fMRI image

writeData

Write NIFTI/ANALYZE files.

pruneModel

Prune a model based on invalid gradients and bounded parameters.

createRegs

Create registration directories for runs of an ARF condition.

RMSEA

Calculate Root Mean Square Error.

arf3DS4-package

Activated Region Fitting fMRI data analysis

BIC

Bayesian Information Criterion

minBIC

Calculate BIC values for multiple ARF models.

checkSolution

Check the integrity of an ARF model

fitModel

Fit an ARF model.

getExp

Access experiment variables.

fitConnectivity

Estimate connectivity of an ARF model

makeSingleTrialEvents

Estimate single-trial fMRI activity.

makeExpDirs

Make Experiment directories.

newModel

Create a new ARF model

arfcorrelation-class

Class "arfcorrelation"

determineStartRect

Calculate starting values for an ARF model

processModel

Process an ARF model.

euclidDist

Calculate Euclidian distances of all regions in a model.

options-class

arf3DS4 "options" class

createAverages

Create averages of runs for a condition.

data-class

arf3DS4 "data" class

fmri.data-class

arf3DS4 "fmri.data" class

fmri2array

Convert fMRI data to an array

version-class

arf3DS4 "version" class

setIsoContour

Create isocontours

makeDerivs

Calculate analytical first-order derivatives of parameters in an ARF model.

loadRda

Load an .Rda file into a specified object.

model-class

arf3DS4 "model" class

setFuncTimings

Set the timings of the stimuli and link to raw time-series.

extr-repl-fmridata

Extract/replace elements of an fmri.data object

mnames-class

arf3DS4 "mnames" class

roiConnectivity

calculate Connectivity with spatial averaging

loadReg

Load a registration object.

loadData

Load an arf3DS4 "data" object.

functional-class

arf3DS4 "functional" class

arf-example-data

Activated Region Fitting Example Dataset

setRegFiles

Set registration files.

loadExp

Load an arf3DS4 experiment

createAllAverages

Create Averages of runs for all conditions.

saveReg

Save a registration object

readDerivs

Read (binary) derivative file

wald-class

arf3DS4 "wald" class

clearWarnings

Clear warnings of a model object.

varcov

Calculate (co)variance matrix of an ARF model.

settings-class

arf3DS4 "settings" class

showModels

List all models for a subject/condition.

processSeed

Process a model using a seed number of regions

wald

Calculate Wald statistics for an arf model.

differenceCor

Calculate if correlations differ.

loadOptions

Save/load ARF Options

getAtlasLabels

Find anatomical atlas labels.

registration-class

arf3DS4 "registration" class