Package: fMRIscrub 0.13.0

fMRIscrub: Scrubbing and Other Data Cleaning Routines for fMRI

Data-driven fMRI denoising with projection scrubbing (Pham et al (2022) <doi:10.1016/j.neuroimage.2023.119972>). Also includes routines for DVARS (Derivatives VARianceS) (Afyouni and Nichols (2018) <doi:10.1016/j.neuroimage.2017.12.098>), motion scrubbing (Power et al (2012) <doi:10.1016/j.neuroimage.2011.10.018>), aCompCor (anatomical Components Correction) (Muschelli et al (2014) <doi:10.1016/j.neuroimage.2014.03.028>), detrending, and nuisance regression. Projection scrubbing is also applicable to other outlier detection tasks involving high-dimensional data.

Authors:Amanda Mejia [aut, cre], John Muschelli [aut], Damon Pham [aut], Daniel McDonald [ctb], Fatma Parlak [ctb]

# Install 'fMRIscrub' in R:

install.packages('fMRIscrub', repos = c('https://mandymejia.r-universe.dev', 'https://cloud.r-project.org'))

Datasets:

On CRAN:

Last updated 1 years agofrom:7ee8d6defb. Checks:OK: 1 ERROR: 6. Indexed: yes.

Help page	Topics
Artifact images	artifact_images
First Example Time Series from the ABIDE	Dat1
Second Example Time Series from the ABIDE	Dat2
DVARS	DVARS
Framewise Displacement	FD
Flags to nuisance spikes	flags_to_nuis_spikes
fMRIscrub: fMRI scrubbing and other data cleaning routines	fMRIscrub
Which components have high kurtosis?	high_kurtosis
Leverage	leverage
Plot a '"scrub_DVARS"' object	plot.scrub_DVARS
Plot a '"scrub_FD"' object	plot.scrub_FD
Plot a '"scrub_projection"' object	plot.scrub_projection
Projection scrubbing	pscrub
Stabilize the center and scale of a timeseries robustly	rob_stabilize
Robust distance scrubbing	robdist
Data-driven scrubbing	scrub
Scrub fMRI data in CIFTI format	scrub_xifti
Robust outlier detection based on SHASH distribution	SHASH_out
SHASH to normal data transformation	SHASH_to_normal
Summarize a '"scrub_DVARS"' object	print.scrub_DVARS print.summary.scrub_DVARS summary.scrub_DVARS
Summarize a '"scrub_FD"' object	print.scrub_FD print.summary.scrub_FD summary.scrub_FD
Summarize a '"scrub_projection"' object	print.scrub_projection print.summary.scrub_projection summary.scrub_projection