The hardware and bandwidth for this mirror is donated by dogado GmbH, the Webhosting and Full Service-Cloud Provider. Check out our Wordpress Tutorial.
If you wish to report a bug, or if you are interested in having us mirror your free-software or open-source project, please feel free to contact us at mirror[@]dogado.de.
library(gifti)
library(cifti)
library(rgl)
library(matrixStats)
left_gii = "Q1-Q6_R440.L.inflated.32k_fs_LR.surf.gii"
right_gii = "Q1-Q6_R440.R.inflated.32k_fs_LR.surf.gii"
file = "curvature.32k_fs_LR.dscalar.nii"
left_gii = system.file("extdata", left_gii, package = "cifti")
right_gii = system.file("extdata", right_gii, package = "cifti")
file = system.file("extdata", file, package = "cifti")
#####################################
# Getting the Left coordinates/value mapping for cifti
#####################################
left = cifti_coords_gifti(
file,
gii_file = left_gii,
structure = "CIFTI_STRUCTURE_CORTEX_LEFT")Warning in read_cifti(file): Dimensions of the data > 2, so no transposing
done!# gifti surface
left_surf = surf_triangles(left_gii)
#####################################
# Getting the Right coordinates/value mapping for cifti
#####################################
right = cifti_coords_gifti(
file,
gii_file = right_gii,
structure = "CIFTI_STRUCTURE_CORTEX_RIGHT")Warning in read_cifti(file): Dimensions of the data > 2, so no transposing
done!right_surf = surf_triangles(right_gii)
all_vals = rbind(as.matrix(left$values), as.matrix(right$values))
vals = all_vals[,1]
ncol = 99
breaks = seq(
min(vals, na.rm = TRUE),
max(vals, na.rm = TRUE),
len = ncol + 1)
ii <- cut(left$values,
breaks,
include.lowest = TRUE)
## Use bin indices, ii, to select color from vector of
# n-1 equally spaced colors
# ramp_cols = brewer.pal(11, "Spectral")
# ramp_cols = hotmetal()
# ramp_cols = c("red", "blue")
# ramp_cols = gray(0:64/64)
# ramp_cols = c("white", "black")
ramp_cols = c("black", "white")
colors <- colorRampPalette(
ramp_cols
)(ncol)[ii]
rgl.triangles(left_surf$pointset, color = colors)
ii <- cut(right$values,
breaks,
include.lowest = TRUE)
## Use bin indices, ii, to select color from vector of
# n-1 equally spaced colors
# colors <- colorRampPalette(
# c("red", "blue"))(ncol)[ii]
rgl.triangles(right_surf$pointset, color = colors)
# rgl.close()rgl.open()
rgl.triangles(left_surf$pointset, color = colors)
left_mid = colMeans(left_surf$pointset)
left_ranges = colRanges(left_surf$pointset)
size_left = rowDiffs(left_ranges)
left_text = left_mid
left_text[3] = left_ranges[3,2] + size_left[3]/4
rgl.texts(x = left_text, text = "Left")
right_mid = colMeans(right_surf$pointset)
right_surf$pointset[,2] = right_surf$pointset[,2] + size_left[2] * 1.25
right_surf$pointset[,1] = -1 * right_surf$pointset[,1]
right_surf$pointset[,2] = -1 * right_surf$pointset[,2]
right_mid = colMeans(right_surf$pointset)
right_text = right_mid
right_text[3] = left_text[3]
rgl.triangles(right_surf$pointset, color = colors)
rgl.texts(x = right_text, text = "Right")
rgl.viewpoint(0, -70)
play3d(spin3d(), duration = 3)These binaries (installable software) and packages are in development.
They may not be fully stable and should be used with caution. We make no claims about them.
Health stats visible at Monitor.