Tristan's comment triggered me to post a list of caret_command's features
(enter "caret_command -help-full" to get full usage/help):
caret_command -caret-data-file-compare
caret_command -caret-file-name-unit-test
caret_command -caret-help-create-html-index-file
caret_command -caret6-convert-data-file
caret_command -caret6-convert-spec-file
caret_command -color-file-add-color
caret_command -color-file-create-missing-colors
caret_command -deformation-map-apply
caret_command -deformation-map-apply-generic-names
caret_command -deformation-map-create
caret_command -deformation-map-path
caret_command -extend
caret_command -file-convert
caret_command -file-read-time
caret_command -file-substitution
caret_command -gifti-info
caret_command -help
caret_command -help-full
caret_command -help-global-options
caret_command -help-html
caret_command -help-pdf
caret_command -help-search
caret_command -image-combine
caret_command -image-compare
caret_command -image-format-convert
caret_command -image-insert-text
caret_command -image-resize
caret_command -image-to-web-page
caret_command -image-view
caret_command -metric-clustering
caret_command -metric-composite
caret_command -metric-composite-identified-columns
caret_command -metric-correlation-coefficient-map
caret_command -metric-extrema
caret_command -metric-file-create
caret_command -metric-gradient
caret_command -metric-gradient-all
caret_command -metric-in-group-difference
caret_command -metric-information
caret_command -metric-math
caret_command -metric-math-postfix
caret_command -metric-multiple-correlation-coefficient-map
caret_command -metric-set-column-name
caret_command -metric-set-column-to-scalar
caret_command -metric-smoothing
caret_command -metric-statistics-anova-one-way
caret_command -metric-statistics-anova-two-way
caret_command -metric-statistics-coordinate-difference
caret_command -metric-statistics-interhemispheric-clusters
caret_command -metric-statistics-kruskal-wallis
caret_command -metric-statistics-levene-map
caret_command -metric-statistics-normalization
caret_command -metric-statistics-one-sample-t-test
caret_command -metric-statistics-paired-t-test
caret_command -metric-statistics-shuffled-cross-correlation-map
caret_command -metric-statistics-shuffled-t-map
caret_command -metric-statistics-subtract-group-average
caret_command -metric-statistics-t-map
caret_command -metric-statistics-two-sample-t-test
caret_command -metric-statistics-z-map
caret_command -metric-twin-comparison
caret_command -metric-twin-paired-data-diffs
caret_command -paint-add-columns
caret_command -paint-assign-nodes-relative-to-line
caret_command -paint-assign-to-nodes
caret_command -paint-composite
caret_command -paint-dilation
caret_command -paint-file-create
caret_command -paint-label-name-update
caret_command -paint-set-column-name
caret_command -preferences-file-settings
caret_command -scene-create
caret_command -script-comment
caret_command -script-convert
caret_command -script-run
caret_command -script-variable-read
caret_command -script-variable-set
caret_command -show-scene
caret_command -show-surface
caret_command -show-volume
caret_command -spec-file-add
caret_command -spec-file-change-resolution
caret_command -spec-file-clean
caret_command -spec-file-copy
caret_command -spec-file-create
caret_command -spec-file-directory-clean
caret_command -spec-file-zip
caret_command -statistic-set-random-seed
caret_command -statistic-unit-test
caret_command -stereotaxic-spaces
caret_command -study-metadata-duplicates
caret_command -study-metadata-file-validate
caret_command -surface-affine-regression
caret_command -surface-align-to-standard-orientation
caret_command -surface-apply-transformation-matrix
caret_command -surface-average
caret_command -surface-bank-straddling
caret_command -surface-border-create-average
caret_command -surface-border-create-parallel-border
caret_command -surface-border-cutter
caret_command -surface-border-delete
caret_command -surface-border-draw-around-roi
caret_command -surface-border-draw-geodesic
caret_command -surface-border-draw-metric
caret_command -surface-border-file-merge
caret_command -surface-border-intersection
caret_command -surface-border-landmark-identification
caret_command -surface-border-lengths
caret_command -surface-border-link-to-focus
caret_command -surface-border-merge
caret_command -surface-border-nibbler
caret_command -surface-border-projection
caret_command -surface-border-resample
caret_command -surface-border-reverse
caret_command -surface-border-set-variability
caret_command -surface-border-to-metric
caret_command -surface-border-to-paint
caret_command -surface-border-unprojection
caret_command -surface-border-variability
caret_command -surface-cell-create
caret_command -surface-cell-projection
caret_command -surface-cell-unprojection
caret_command -surface-crossover-check
caret_command -surface-curvature
caret_command -surface-distortion
caret_command -surface-flat-multi-morph
caret_command -surface-flatten
caret_command -surface-foci-attribute-assignment
caret_command -surface-foci-create
caret_command -surface-foci-delete
caret_command -surface-foci-projection
caret_command -surface-foci-projection-pals
caret_command -surface-foci-reassign-study-names
caret_command -surface-foci-study-validate
caret_command -surface-foci-unprojection
caret_command -surface-folding-measures
caret_command -surface-generate-inflated
caret_command -surface-geodesic
caret_command -surface-identify-sulci
caret_command -surface-inflate
caret_command -surface-information
caret_command -surface-normals
caret_command -surface-place-foci-at-limits
caret_command -surface-place-focus-at-extremum
caret_command -surface-region-of-interest-selection
caret_command -surface-register-prepare-slits
caret_command -surface-register-sphere
caret_command -surface-register-sphere-spec-only
caret_command -surface-roi-coord-report
caret_command -surface-roi-node-areas
caret_command -surface-roi-statistical-report
caret_command -surface-shape-measures
caret_command -surface-smoothing
caret_command -surface-sphere-multi-morph
caret_command -surface-sulcal-depth
caret_command -surface-sulcal-identification-probabilistic
caret_command -surface-to-c-arrays
caret_command -surface-to-cerebral-hull
caret_command -surface-to-segmentation-volume
caret_command -surface-to-volume
caret_command -surface-topology-disconnect-nodes
caret_command -surface-topology-neighbors
caret_command -surface-topology-report
caret_command -surface-transform-to-standard-view
caret_command -surfaces-to-segmentation-volume-mask
caret_command -system-command-execute
caret_command -system-file-copy
caret_command -system-file-delete
caret_command -transformation-matrix-create
caret_command -verify
caret_command -version
caret_command -volume-TFCE
caret_command -volume-anatomy-peaks
caret_command -volume-bias-correction
caret_command -volume-blur
caret_command -volume-classify-intensity
caret_command -volume-convert-vector-to-volume
caret_command -volume-copy-vector-mag
caret_command -volume-create
caret_command -volume-create-corpus-callosum-slice
caret_command -volume-create-in-stereotaxic-space
caret_command -volume-dilate
caret_command -volume-dilate-erode
caret_command -volume-dilate-erode-mask
caret_command -volume-erode
caret_command -volume-file-combine
caret_command -volume-file-merge
caret_command -volume-fill-biggest-object
caret_command -volume-fill-holes
caret_command -volume-fill-slice
caret_command -volume-find-limits
caret_command -volume-flood-fill
caret_command -volume-fsl-to-vector
caret_command -volume-gradient
caret_command -volume-histogram
caret_command -volume-information
caret_command -volume-information-nifti
caret_command -volume-make-plane
caret_command -volume-make-rectangle
caret_command -volume-make-shell
caret_command -volume-make-sphere
caret_command -volume-map-to-surface
caret_command -volume-map-to-surface-pals
caret_command -volume-map-to-surface-roi-file
caret_command -volume-map-to-vtk-model
caret_command -volume-mask-volume
caret_command -volume-mask-with-volume
caret_command -volume-near-to-plane
caret_command -volume-pad-volume
caret_command -volume-prob-atlas-to-functional
caret_command -volume-raw-import-file
caret_command -volume-remove-islands
caret_command -volume-resample
caret_command -volume-rescale-voxels
caret_command -volume-resize
caret_command -volume-roi-gradient
caret_command -volume-roi-minima
caret_command -volume-scale-255
caret_command -volume-scale-percent-min-max-255
caret_command -volume-sculpt
caret_command -volume-segment
caret_command -volume-segment-ligase
caret_command -volume-segment-stereo-space
caret_command -volume-segmentation-to-cerebral-hull
caret_command -volume-set-orientation
caret_command -volume-set-origin
caret_command -volume-set-spacing
caret_command -volume-shift-axis
caret_command -volume-smear-axis
caret_command -volume-threshold
caret_command -volume-threshold-dual
caret_command -volume-threshold-inverse
caret_command -volume-topology-corrector
caret_command -volume-topology-graph
caret_command -volume-topology-report
caret_command -volume-vector-combine
caret_command -volume-vector-replace-mag-volume
This used to change very often, though less so now that focus is on Caret
Workbench (aka caret7). It also will have a robust command line toolkit, but
it's not yet ready for public release.
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