rftPval: RFT p-values

In stnava/ANTsR: ANTs in R: Quantification Tools for Biomedical Images

RFT p-values

Description

Calculates p-values of a statistical field using random field theory

Usage

rftPval(D, c, k, u, n, resels, df, fieldType)

Arguments

D	image dimensions
c	Threshold
k	spatial extent in resels (minimum cluster size in resels)
u	Number of clusters
n	number of statistical field in conjunction
resels	resel measurements of the search region
df	degrees of freedom expressed as df = c(degrees of interest, degrees of error)
fieldType	T: T-field F: F-field X: Chi-square field' Z: Gaussian field

Details

This function calculates p-values of a thresholded statistical field at various levels:

set-level rft.pval(D, c, k, u, n, resels, df, fieldType)

cluster-level rft.pval(D, 1, k, u, n, resels, df, fieldType)

peak-level rft.pval(D, 1, 0, u, n, resels, df, fieldType)

Where set-level refers to obtaining the set of clusters, cluster-level refers to a specific cluster, and peak-level refers to the maximum (or peak) of a single cluster.

Value

The probability of obtaining the specified cluster

Pcor:

corrected p-value

Pu:

uncorrected p-value

Ec:

expected number of clusters

ek:

expected number of resels per cluster

Author(s)

Zachary P. Christensen

References

Friston K.J., (1994) Assessing the Significance of Focal Activations Using Their Spatial Extent.

Friston K.J., (1996) Detecting Activations in PET and fMRI: Levels of Inference and Power.

Worlsey K.J., (1996) A Unified Statistical Approach for Determining Significant Signals in Images of Cerebral Activation.

See Also

rftResults, resels

Examples

## Not run: 
# using rftPval for hypothetical 3D t-statistical image
# assume resels have been calculated and df = c(dfi, dfe)

# peak RFT p-value (peak = the maximum of a specific cluster)
peakP <- rftPval(3, 1, 0, peak, 1, resels, df, fieldType = "T")$Pcor

# cluster RFT p-value (u = the value the statistical field was threshold at
# and k = the size of the cluster in resels)
clusterP <- rftPval(3, 1, k, u, 1, resels, df, fieldType = "T")$Pcor

# set RFT p-value
setP <- rftPval(3, numberOfClusters, minimumClusterSize, u, 1, resels, df,
  fieldType = "T"
)$Pcor

## End(Not run)

stnava/ANTsR documentation built on April 13, 2025, 4:10 a.m.