Package: ggseg.formats 0.0.2
Athanasia Mo Mowinckel
ggseg.formats: Brain Atlas Data Structures for the 'ggseg' Ecosystem
Provides the 'ggseg_atlas' S3 class used across the 'ggseg' ecosystem for 2D and 3D brain visualisation. Ships three bundled atlases ('Desikan-Killiany', 'FreeSurfer' 'aseg', 'TRACULA') and functions for querying, subsetting, renaming, and enriching atlas objects. Also includes readers for 'FreeSurfer' statistics files.
Authors:
ggseg.formats_0.0.2.tar.gz
ggseg.formats_0.0.2.zip(r-4.7)ggseg.formats_0.0.2.zip(r-4.6)ggseg.formats_0.0.2.zip(r-4.5)
ggseg.formats_0.0.2.tgz(r-4.6-any)ggseg.formats_0.0.2.tgz(r-4.5-any)
ggseg.formats_0.0.2.tar.gz(r-4.7-any)ggseg.formats_0.0.2.tar.gz(r-4.6-any)
ggseg.formats_0.0.2.tgz(r-4.6-emscripten)
manual.pdf |manual.html✨
card.svg |card.png
ggseg.formats/json (API)
NEWS
| # Install 'ggseg.formats' in R: |
| install.packages('ggseg.formats', repos = c('https://ggsegverse.r-universe.dev', 'https://cloud.r-project.org')) |
Bug tracker:https://github.com/ggsegverse/ggseg.formats/issues
Pkgdown/docs site:https://ggsegverse.github.io
Last updated from:3ff5ef6b05. Checks:9 OK. Indexed: yes.
| Target | Result | Time | Files | Syslog |
|---|---|---|---|---|
| linux-devel-x86_64 | OK | 196 | ||
| source / vignettes | OK | 260 | ||
| linux-release-x86_64 | OK | 211 | ||
| macos-release-arm64 | OK | 137 | ||
| macos-oldrel-arm64 | OK | 150 | ||
| windows-devel | OK | 146 | ||
| windows-release | OK | 120 | ||
| windows-oldrel | OK | 121 | ||
| wasm-release | OK | 153 |
Exports:as_brain_atlasas_ggseg_atlasasegatlas_core_addatlas_labelsatlas_meshesatlas_paletteatlas_region_contextualatlas_region_keepatlas_region_removeatlas_region_renameatlas_regionsatlas_sfatlas_typeatlas_verticesatlas_view_gatheratlas_view_keepatlas_view_removeatlas_view_remove_regionatlas_view_remove_smallatlas_view_reorderatlas_viewsbrain_atlasbrain_data_corticalbrain_data_subcorticalbrain_data_tractbrain_labelsbrain_regionsbrain_viewsconvert_legacy_brain_atlasdkget_brain_meshget_cerebellar_meshggseg_atlasggseg_data_cerebellarggseg_data_corticalggseg_data_subcorticalggseg_data_tractis_brain_atlasis_cerebellar_atlasis_cortical_atlasis_ggseg_atlasis_ggseg3d_atlasis_subcortical_atlasis_tract_atlasread_atlas_filesread_freesurfer_statsread_freesurfer_tabletraculaunify_legacy_atlases
Dependencies:classclassIntclicpp11DBIdplyre1071farvergenericsggplot2gluegtableisobandKernSmoothlabelinglifecyclemagrittrMASSpillarpkgconfigproxypurrrR6RColorBrewerRcpprlangs2S7scalessfstringistringrtibbletidyrtidyselectunitsutf8vctrsviridisLitewithrwk
Readme and manuals
Help Manual
| Help page | Topics |
|---|---|
| Coerce to ggseg atlas | as_brain_atlas as_ggseg_atlas |
| FreeSurfer Automatic Subcortical Segmentation Atlas | aseg |
| Extract unique labels from an atlas | atlas_labels brain_labels |
| Manipulate brain atlas regions and views | atlas_core_add atlas_manipulation atlas_region_contextual atlas_region_keep atlas_region_remove atlas_region_rename atlas_view_gather atlas_view_keep atlas_view_remove atlas_view_remove_region atlas_view_remove_small atlas_view_reorder |
| Get atlas meshes for 3D rendering | atlas_meshes |
| Get atlas palette | atlas_palette |
| Extract unique region names from an atlas | atlas_regions brain_regions |
| Get atlas data for 2D rendering | atlas_sf |
| Detect atlas type | atlas_type |
| Get atlas vertices for 3D rendering | atlas_vertices |
| Get available views in atlas | atlas_views brain_views |
| Convert legacy ggseg atlases to ggseg_atlas format | convert_legacy_brain_atlas unify_legacy_atlases |
| Desikan-Killiany Cortical Atlas | dk |
| Get brain surface mesh | get_brain_mesh |
| Get SUIT cerebellar surface mesh | get_cerebellar_mesh |
| Constructor for ggseg atlas | brain_atlas ggseg_atlas |
| Create cerebellar atlas data | ggseg_data_cerebellar |
| Create cortical atlas data | brain_data_cortical ggseg_data_cortical |
| Create subcortical atlas data | brain_data_subcortical ggseg_data_subcortical |
| Create tract atlas data | brain_data_tract ggseg_data_tract |
| Check ggseg atlas class | is_brain_atlas is_cerebellar_atlas is_cortical_atlas is_ggseg_atlas is_subcortical_atlas is_tract_atlas |
| Check if object is a legacy ggseg3d atlas | is_ggseg3d_atlas |
| Read in atlas data from all subjects | read_atlas_files |
| Read in raw FreeSurfer stats file | read_freesurfer_stats |
| Read in stats table from FreeSurfer | read_freesurfer_table |
| TRACULA White Matter Tract Atlas | tracula |
