Label multivariate components by an anatomical coordinate system.

This function will provide a mapping that labels the list of input images and each of their blobs.

getMultivariateTemplateCoordinates(
  imageSetToBeLabeledIn,
  templateWithLabels,
  labelnames = NULL,
  outprefix = NA,
  convertToTal = FALSE,
  pvals = NA,
  threshparam = 1,
  clustparam = 250,
  identifier
)

Arguments

imageSetToBeLabeledIn

a template paired with (most likely) the output of a multivariate sparse decomposition or (alternatively) could be just a statistical map with zeroes in non-interesting areas

templateWithLabels

e..g the mni image and brodmann label set

labelnames

a list of names for the labels

outprefix

if output to a file, provide file prefix

convertToTal

bool, return talairach coordinates

pvals

the already computed pvalue for each component

threshparam

for pvals

clustparam

for clusters

identifier

unique ID for this study

Value

The output point coordinates are in approximate Talairach / MNI (or whatever) template space.

Details

Uses getTemplateCoordinates as a sub-routine.

TBN

Author

Avants, BB

Examples

if (FALSE) { # \dontrun{
tem <- antsImageRead(getANTsRData("ch2"))
temlab <- antsImageRead(getANTsRData("ch2b"))
temlab2 <- antsImageRead(getANTsRData("ch2a"))
# try getANTsRData if you have www access
mymni <- list(
  antsImageRead(getANTsRData("mni"), 3),
  antsImageRead(getANTsRData("mnib"), 3),
  antsImageRead(getANTsRData("mnia"), 3)
)
mytem <- list(smoothImage(tem, 3), temlab, temlab2)
# mynetworkdescriptor<-getMultivariateTemplateCoordinates(
#  mytem, mymni , convertToTal = TRUE , pvals=c(0.01,0.05) )
} # }