In neuroconductor/ggsegExtra: Extra Utilities for the 'ggseg'-Plotting Tool

knitr::opts_chunk$set(
  collapse = TRUE,
  comment = "#>",
  fig.path = "man/figures/README-",
  out.width = "100%",
  echo = TRUE
)
library(ggseg)
library(ggseg3d)
devtools::load_all(".")

get_data_list <- function(package){
  as_tibble(data(package=package)$results)
}

atlases <- lapply(basename(ggsegExtra::ggseg_atlas_repos()$repo),
                  get_data_list)
atlases <- dplyr::bind_rows(atlases)

ggsegExtra

This package contains extra atlases for the use in the ggseg plotting package in R.

Atlases

There are currently r nrow(atlases) available atlases across r length(unique(atlases$Package)) packages. The packages, their repository name and location can be found with:

library(ggsegExtra)

# List all verified compatible atlases
ggseg_atlas_repos()

We have tutorials on how to make atlases available in the Articles of the package documentation page. Currently, the pipeline for making 3d atlases is complete given Freesufer is installed on your system and you have a ready .annot file to use for the converions. Creating 2d atlases is currently still a work in progress, and we are not able to provide a better solution than the one described at the moment. We hope to remedy this in the near future.

Code of Conduct

Please note that the ggsegExtra project is released with a Contributor Code of Conduct. By contributing to this project, you agree to abide by its terms.

Report bugs or requests

Don't hesitate to ask for support using github issues, or requesting new atlases. While we would love getting help in creating new atlases, you may also request atlases through the issues, and we will try to get to it.

Funding

This work is funded by EU Horizon 2020 Grant 'Healthy minds 0-100 years: Optimizing the use of European brain imaging cohorts (Lifebrain)', with grant agreement 732592. The project has also received funding from the European Research Council’s Starting grant (grant agreements 283634, to Anders Martin Fjell and 313440 to Kristine Beate Walhovd) and Consolidator Grant (grant agreement 771355 to Kristine Beate Walhovd and 725025 to Anders Martin Fjell). The project has received funding through multiple grants from the Norwegian Research Council.