Nothing
## ---- include = FALSE, message=FALSE, results='hide'--------------------------
knitr::opts_chunk$set(
collapse = TRUE,
comment = "#>",
eval = FALSE
)
library(threeBrain)
## ----setup--------------------------------------------------------------------
# library(threeBrain)
# subject_code <- "N27"
# subject_path <- "~/Downloads/N27"
# brain <- freesurfer_brain2(subject_path, subject_code)
# print(brain)
# #> Subject - N27
# #> Transforms:
# #>
# #> - FreeSurfer TalXFM [from scanner to MNI305]:
# #> [,1] [,2] [,3] [,4]
# #> [1,] 0.9692 -0.0029 -0.0134 -0.1638
# #> [2,] 0.0062 0.9685 0.0492 -2.0717
# #> [3,] 0.0145 0.0276 0.9541 0.1361
# #> [4,] 0.0000 0.0000 0.0000 1.0000
# #>
# #> - Torig [Voxel CRS to FreeSurfer origin, vox2ras-tkr]
# #> [,1] [,2] [,3] [,4]
# #> [1,] -1 0 0 128
# #> [2,] 0 0 1 -128
# #> [3,] 0 -1 0 128
# #> [4,] 0 0 0 1
# #>
# #> - Norig [Voxel CRS to Scanner center, vox2ras]
# #> [,1] [,2] [,3] [,4]
# #> [1,] -1 0 0 128.5
# #> [2,] 0 0 1 -145.5
# #> [3,] 0 -1 0 146.5
# #> [4,] 0 0 0 1.0
# #>
# #> - Scanner center relative to FreeSurfer origin
# #> [1] -0.5 17.5 -18.5
# #>
# #> - FreeSurfer RAS to MNI305, vox2vox-MNI305
# #> [,1] [,2] [,3] [,4]
# #> [1,] 0.9692 -0.0029 -0.0134 0.12365
# #> [2,] 0.0062 0.9685 0.0492 -18.10715
# #> [3,] 0.0145 0.0276 0.9541 17.31120
# #> [4,] 0.0000 0.0000 0.0000 1.00000
# #> Surface information (total count 1)
# #> Loading required namespace: rstudioapi
# #> pial [ std.141 ]
# #> Volume information (total count 1)
# #> T1
## -----------------------------------------------------------------------------
# brain$plot()
## -----------------------------------------------------------------------------
# brain <- freesurfer_brain2(
# subject_path, subject_code,
# surface_types = c('pial', 'smoothwm'),
# atlas_types = 'aseg')
#
# brain$plot(
# controllers = list(
# "Voxel Type" = "aseg",
# "Voxel Label" = "4,5,6,7",
# "Surface Type" = "smoothwm",
# "Left Opacity" = 0.4,
# "Overlay Coronal" = TRUE
# ),
# control_display = FALSE,
# camera_pos = c(0, -500, 0)
# )
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