# NOT RUN {
library(neurobase)
library(fslr)
library(oasis)
niis = tempfile(fileext = ".nii.gz")
if (require(httr)) {
url = paste0("https://s3.us-east-2.amazonaws.com/brainder/software/",
"flair/templates/GG-853-FLAIR-2.0mm.nii.gz")
req <- httr::GET(url,
httr::write_disk(path = niis))
httr::stop_for_status(req)
flair <- readnii(niis)
if (have.fsl()) {
brain_mask = fslbet(niis) > 0
} else {
ind = list(c(10L, 81L), c(12L, 101L), c(3L, 78L))
all.ind = lapply(ind, function(x) seq(x[1], x[2]))
brain_mask = niftiarr(flair, 0)
eg = expand.grid(all.ind)
eg = as.matrix(eg)
brain_mask[eg] = 1
}
voxel_selection_mask <- voxel_selection(flair,
brain_mask, cutoff = .85)
}
# }
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