The goal of fxtas is to apply the Ordinal SuStaIn algorithm (Young et
al. (2021)) to study disease progression in fragile X-associated
tremor/ataxia syndrome,
as described in Morrison et al (not yet published), “Progression of
fragile X-associated tremor/ataxia syndrome revealed by subtype and
stage inference”.
You can install the development version of fxtas from GitHub with:
# install.packages("devtools")
devtools::install_github("UCD-IDDRC/fxtas")The manuscript is implemented in the file ordinal-sustain.qmd in the
analyses subfolder, which incorporates several subfiles in this
repository. The data-raw folder contains numerous auxiliary scripts,
including:
-
data preprocessing scripts, which be run in the following order (after extracting the necessary files from the GP, GP4, and Trax research databases):
gp3.rgp4.rgp34.Rtrax.R
-
SLURM batch scripts and corresponding R scripts for pre-running the computation-heavy sections of the analysis on an appropriately-preconfigured distributed computing server.
If the corresponding output files have not been pre-generated,
ordinal-sustain.qmd should produce them.
Young, Alexandra L, Jacob W Vogel, Leon M Aksman, Peter A Wijeratne, Arman Eshaghi, Neil P Oxtoby, Steven CR Williams, Daniel C Alexander, and Alzheimer’s Disease Neuroimaging Initiative. 2021. “Ordinal SuStaIn: Subtype and Stage Inference for Clinical Scores, Visual Ratings, and Other Ordinal Data.” Frontiers in Artificial Intelligence 4: 613261. https://doi.org/10.3389/frai.2021.613261.