Comparison of Volumes Estimated by FreeSurfer and FSL

This repo holds the manuscript and analyses for Comparing Automated Subcortical Volume Estimation Methods; Amygdala Volumes Estimated by FSL and FreeSurfer Have Poor Consistency. A preprint is available on biorxiv: https://doi.org/10.1101/2024.03.07.583900.

Reproducing Analyses

Data

The report uses data from the UKB (Application 33278, Dataset 677207, Basket 4090939).

Environment

The computing environment is tracked with renv. The environment can be installed with

renv::restore()

Analyses and Manuscript

Analyses are structured with the targets package. To reproduce the analyses and regenerate the manuscript, run

targets::tar_make()

The final target will render the quarto project, producing _manuscript/index.pdf.