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ggseg - Plotting Tool for Brain Atlases

Provides a 'ggplot2' geom and position for visualizing brain region data on cortical, subcortical, and white matter tract atlases. Brain atlas geometries are stored as polygon data, enabling seamless integration with the 'ggplot2' ecosystem including faceting, custom scales, and themes. Mowinckel & Vidal-Piñeiro (2020) <doi:10.1177/2515245920928009>.

Last updated

12.25 score 274 stars 1 dependents 812 scripts 1.2k downloads

ggseg - Plotting Tool for Brain Atlases

Provides a 'ggplot2' geom and position for visualizing brain region data on cortical, subcortical, and white matter tract atlases. Brain atlas geometries are stored as polygon data, enabling seamless integration with the 'ggplot2' ecosystem including faceting, custom scales, and themes. Mowinckel & Vidal-Piñeiro (2020) <doi:10.1177/2515245920928009>.

Last updated

12.25 score 274 stars 1 dependents 812 scripts 1.2k downloads

meetupr - Access Meetup Data

Provides programmatic access to the 'Meetup' 'GraphQL' API (<https://www.meetup.com/graphql/>), enabling users to retrieve information about groups, events, and members from 'Meetup' (<https://www.meetup.com/>). Supports authentication via 'OAuth2' and includes functions for common queries and data manipulation tasks.

Last updated

apiapi-wrappermeetupr-ladiesrladiesrladies-global

9.52 score 80 stars 1 dependents 116 scripts 326 downloads

ggseg.formats - Brain Atlas Data Structures for the 'ggsegverse' Ecosystem

Provides the 'ggseg_atlas' S3 class used across the 'ggsegverse' ecosystem for 2D and 3D brain visualisation. Ships four bundled atlases ('Desikan-Killiany', 'FreeSurfer' 'aseg', 'TRACULA', 'SUIT') and functions for querying, subsetting, renaming, and enriching atlas objects. Also includes readers for 'FreeSurfer' statistics files.

Last updated

9.19 score 22 dependents 89 scripts 1.1k downloads

ggseg.formats - Brain Atlas Data Structures for the 'ggsegverse' Ecosystem

Provides the 'ggseg_atlas' S3 class used across the 'ggsegverse' ecosystem for 2D and 3D brain visualisation. Ships four bundled atlases ('Desikan-Killiany', 'FreeSurfer' 'aseg', 'TRACULA', 'SUIT') and functions for querying, subsetting, renaming, and enriching atlas objects. Also includes readers for 'FreeSurfer' statistics files.

Last updated

9.19 score 22 dependents 89 scripts 1.1k downloads

meetupr - Access Meetup Data

Provides programmatic access to the 'Meetup' 'GraphQL' API (<https://www.meetup.com/graphql/>), enabling users to retrieve information about groups, events, and members from 'Meetup' (<https://www.meetup.com/>). Supports authentication via 'OAuth2' and includes functions for common queries and data manipulation tasks.

Last updated

apiapi-wrappermeetupr-ladiesrladiesrladies-global

9.05 score 80 stars 117 scripts 230 downloads

ggseg3d - Interactive 3D Brain Atlas Visualization

Plot brain atlases as interactive 3D meshes using 'Three.js' via 'htmlwidgets', or render publication-quality static images through 'rgl' and 'rayshader'. A pipe-friendly API lets you map data onto brain regions, control camera angles, toggle region edges, overlay glass brains, and snapshot or ray-trace the result. Additional atlases are available through the 'ggsegverse' r-universe. Mowinckel & Vidal-Piñeiro (2020) <doi:10.1177/2515245920928009>.

Last updated

8.91 score 46 stars 1 dependents 182 scripts 711 downloads

ggseg3d - Interactive 3D Brain Atlas Visualization

Plot brain atlases as interactive 3D meshes using 'Three.js' via 'htmlwidgets', or render publication-quality static images through 'rgl' and 'rayshader'. A pipe-friendly API lets you map data onto brain regions, control camera angles, toggle region edges, overlay glass brains, and snapshot or ray-trace the result. Additional atlases are available through the 'ggsegverse' r-universe. Mowinckel & Vidal-Piñeiro (2020) <doi:10.1177/2515245920928009>.

Last updated

8.91 score 46 stars 1 dependents 182 scripts 711 downloads

ggseg.extra - Create Brain Atlases for the 'ggsegverse' Plotting Ecosystem

Create brain atlas data sets compatible with the 'ggsegverse' plotting packages. Provides pipelines for building cortical, subcortical, white-matter tract, and cerebellar atlases from 'FreeSurfer' annotation files, 'GIFTI' and 'CIFTI' surface formats, 'neuromaps', cerebellar flatmaps, and volumetric 'NIfTI' images.

Last updated

8.68 score 66 stars 90 scripts

ggseg.extra - Create Brain Atlases for the 'ggsegverse' Plotting Ecosystem

Create brain atlas data sets compatible with the 'ggsegverse' plotting packages. Provides pipelines for building cortical, subcortical, white-matter tract, and cerebellar atlases from 'FreeSurfer' annotation files, 'GIFTI' and 'CIFTI' surface formats, 'neuromaps', cerebellar flatmaps, and volumetric 'NIfTI' images.

Last updated

8.68 score 66 stars 90 scripts

neuromapr - Spatial Null Models and Transforms for Brain Map Comparison

Implements spatial null models and coordinate-space transformations for statistical comparison of brain maps, following the framework described in Markello et al. (2022) <doi:10.1038/s41592-022-01625-w>. Provides variogram-matching surrogates (Burt et al. 2020), Moran spectral randomization (Wagner & Dray 2015), and spin-based permutation tests (Alexander-Bloch et al. 2018). Includes an R interface to the 'neuromaps' annotation registry for browsing, downloading, and comparing brain map annotations from the Open Science Framework ('OSF'). Integrates with 'ciftiTools' for coordinate-space transforms.

Last updated

5.78 score 6 stars 8 scripts 391 downloads

neuromapr - Spatial Null Models and Transforms for Brain Map Comparison

Implements spatial null models and coordinate-space transformations for statistical comparison of brain maps, following the framework described in Markello et al. (2022) <doi:10.1038/s41592-022-01625-w>. Provides variogram-matching surrogates (Burt et al. 2020), Moran spectral randomization (Wagner & Dray 2015), and spin-based permutation tests (Alexander-Bloch et al. 2018). Includes an R interface to the 'neuromaps' annotation registry for browsing, downloading, and comparing brain map annotations from the Open Science Framework ('OSF'). Integrates with 'ciftiTools' for coordinate-space transforms.

Last updated

5.78 score 6 stars 8 scripts 410 downloads

nettskjemar - Connect to the 'nettskjema.no' API of the University of Oslo

Enables users to retrieve data, meta-data, and codebooks from <https://nettskjema.no/>. The data from the API is richer than from the online data portal. This package is not developed by the University of Oslo IT. Mowinckel (2021) <doi:10.5281/zenodo.4745481>.

Last updated

5.74 score 2 stars 34 scripts 423 downloads

nettskjemar - Connect to the 'nettskjema.no' API of the University of Oslo

Enables users to retrieve data, meta-data, and codebooks from <https://nettskjema.no/>. The data from the API is richer than from the online data portal. This package is not developed by the University of Oslo IT. Mowinckel (2021) <doi:10.5281/zenodo.4745481>.

Last updated

5.74 score 2 stars 34 scripts 433 downloads

ggseg.meshes - Additional Brain Surface Meshes for the 'ggsegverse' Ecosystem

Provides additional brain surface meshes for cortical and cerebellar visualisation in the 'ggsegverse' ecosystem. Cortical surfaces include pial, white, midthickness, semi-inflated, sphere, smoothwm, and orig at fsaverage5 resolution. Cerebellar surfaces include the Spatially Unbiased Infratentorial Template (SUIT) flatmap. All meshes follow the same vertices/faces data frame format used by 'ggseg.formats' and 'ggseg3d'.

Last updated

5.35 score 4 scripts 373 downloads

ggseg.meshes - Additional Brain Surface Meshes for the 'ggsegverse' Ecosystem

Provides additional brain surface meshes for cortical and cerebellar visualisation in the 'ggsegverse' ecosystem. Cortical surfaces include pial, white, midthickness, semi-inflated, sphere, smoothwm, and orig at fsaverage5 resolution. Cerebellar surfaces include the Spatially Unbiased Infratentorial Template (SUIT) flatmap. All meshes follow the same vertices/faces data frame format used by 'ggseg.formats' and 'ggseg3d'.

Last updated

5.35 score 4 scripts 373 downloads

questionnaires - Package with functions to calculate components and sums for LCBC questionnaires

Creates summaries and factorials of answers to questionnaires.

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4.76 score 4 stars 13 scripts

ggsegSchaefer - Schaefer Atlas for the 'ggsegverse' Ecosystem

Schaefer cortical atlas for the 'ggseg' ecosystem. Provides unified 'ggseg_atlas' objects with both 2D polygon geometry and 3D vertex indices, for use with 'ggseg' and 'ggseg3d'. Includes 7-network and 17-network parcellations at resolutions from 100 to 1000 parcels.

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4.75 score 18 stars 104 scripts

ggsegGlasser - Glasser Atlas for the 'ggsegverse' Ecosystem

Glasser multi-modal cortical parcellation (HCP) atlas for the 'ggseg' ecosystem. Provides a unified 'ggseg_atlas' object with 2D polygon geometry for use with 'ggseg'.

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4.55 score 9 stars 132 scripts

tsdrtools - Convenience package for installing R-packages on UiO TSD

Some packages are hard to install on the secure closed server of the University of Oslo, TSD This package has some functions to help users more easily install packages to TSD that cannot be installed using the mini-CRAN service within TSD.

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4.10 score 5 stars 5 scripts

tsdrtools - Convenience package for installing R-packages on UiO TSD

Some packages are hard to install on the secure closed server of the University of Oslo, TSD This package has some functions to help users more easily install packages to TSD that cannot be installed using the mini-CRAN service within TSD.

Last updated

4.10 score 5 stars 5 scripts

cloudflarer - Interface to the 'Cloudflare' API

An 'R' interface to the 'Cloudflare' REST API (<https://developers.cloudflare.com/api/>). Wraps the v4 API with authenticated requests, response unwrapping, paginated list helpers, and a generic request function so users can call any endpoint that is not yet covered by a dedicated wrapper.

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api-clientapi-wrappercloudflarecloudflare-apidnshttr2web-analytics

4.08 score 1 dependents 9 scripts

ggsegYeo2011 - Yeo 2011 Atlas for the 'ggsegverse' Ecosystem

Yeo 2011 resting-state network atlases for the 'ggseg' ecosystem. Provides 'ggseg_atlas' objects with 2D polygon geometry for use with 'ggseg'. Includes both 7-network and 17-network parcellations.

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3.94 score 12 stars 24 scripts

Conversions - Collection of functions that convert certain RAW data in the LCBC database

Collection of functions that convert certain RAW data in the LCBC database.

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3.65 score 10 scripts

ggsegGordon - Gordon Atlas for the 'ggseg' Ecosystem

Gordon resting-state cortical parcellation atlas for the 'ggseg' ecosystem. Provides a unified 'ggseg_atlas' object with 2D polygon geometry for use with 'ggseg'.

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3.57 score 5 stars 25 scripts

colorhex - Colors and Palettes from Color-Hex

The website <https://www.color-hex.com> is a great resource of hex colour codes and palettes. This package allows you to retrieve palettes and colour information from the website directly from R. There are also custom scale-functions for 'ggplot2'.

Last updated

color-hexcolor-pickercolors

3.28 score 19 stars 5 scripts 54 downloads

ggsegBrainnetome - Brainnetome Atlas for the 'ggsegverse' Ecosystem

Brainnetome atlas for the 'ggseg' ecosystem. Provides cortical and subcortical 'ggseg_atlas' objects with 2D polygon geometry and 3D vertex indices for use with 'ggseg' and 'ggseg3d'.

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3.18 score 5 stars 7 scripts

wbcmd - Wrapper Functions for 'Connectome Workbench' Commands

Provides R wrapper functions for the 'Connectome Workbench' command-line tool ('wb_command'). Includes a central dispatcher for executing workbench commands, environment detection, and convenience wrappers for common operations on Connectivity Informatics Technology Initiative (CIFTI), Geometry Informatics Technology Initiative (GIFTI), and surface files.

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3.18 score 4 scripts

ggsegJHU - JHU White Matter Atlases for the 'ggseg' Ecosystem

JHU and ICBM white matter atlases for the 'ggseg' ecosystem. Includes the JHU probabilistic tract atlas (Hua et al. 2008), built from its probabilistic maps as a tract atlas with a centerline per tract, and the ICBM-DTI-81 white matter labels (Mori et al. 2005). Both are coregistered to the FreeSurfer 'cvs_avg35_inMNI152' template so 2D slices show cortical reference outlines, and ship as 'ggseg_atlas' objects with 3D geometry for use with 'ggseg3d'.

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3.04 score 5 stars 11 scripts

ggsegAicha - AICHA Atlas for the 'ggseg' Ecosystem

AICHA (Atlas of Intrinsic Connectivity of Homotopic Areas) atlas for the 'ggseg' ecosystem. Provides cortical and subcortical 'ggseg_atlas' objects with 2D polygon geometry and 3D vertex or mesh data, for use with 'ggseg' and 'ggseg3d'.

Last updated

3.02 score 3 stars 4 scripts