Overview | Simulating data for the examples | Fitting an AR model | Whitening design and data matrices | Inspecting innovations | Censored (scrubbed) frames | Correcting residual-projection bias | Parcel pooling and multiscale shrinkage | Fitting ARMA models | AFNI-style restricted AR filters | Diagnostics and sandwich estimates | Next steps
Package: fmriAR 0.4.2
fmriAR: Fast AR and ARMA Noise Whitening for Functional MRI (fMRI) Design and Data
Lightweight utilities to estimate autoregressive (AR) and autoregressive moving average (ARMA) noise models from residuals and apply matched generalized least squares to whiten functional magnetic resonance imaging (fMRI) design and data matrices. The ARMA estimator follows a classic 1982 approach <doi:10.1093/biomet/69.1.81>, and a restricted AR family mirrors workflows described by Cox (2012) <doi:10.1016/j.neuroimage.2011.08.056>.
Authors:
fmriAR_0.4.2.tar.gz
fmriAR_0.4.2.zip(r-4.7-x86_64)fmriAR_0.4.2.zip(r-4.7-arm64)fmriAR_0.4.2.zip(r-4.6-x86_64)fmriAR_0.4.2.zip(r-4.6-arm64)fmriAR_0.4.2.zip(r-4.5-x86_64)
fmriAR_0.4.2.tgz(r-4.6-x86_64)fmriAR_0.4.2.tgz(r-4.6-arm64)fmriAR_0.4.2.tgz(r-4.5-x86_64)fmriAR_0.4.2.tgz(r-4.5-arm64)
fmriAR_0.4.2.tar.gz(r-4.7-arm64)fmriAR_0.4.2.tar.gz(r-4.7-x86_64)fmriAR_0.4.2.tar.gz(r-4.6-arm64)fmriAR_0.4.2.tar.gz(r-4.6-x86_64)
fmriAR_0.4.2.tgz(r-4.6-emscripten)
manual.pdf |manual.html✨
DESCRIPTION |NEWS
card.svg |card.png
fmriAR/json (API)
| # Install 'fmriAR' in R: |
| install.packages('fmriAR', repos = c('https://bbuchsbaum.r-universe.dev', 'https://cloud.r-project.org')) |
Bug tracker:https://github.com/bbuchsbaum/fmriar/issues
Pkgdown/docs site:https://bbuchsbaum.github.io
Uses libs:
Last updated from:bb0789c7d1. Checks:15 OK. Indexed: yes.
| Target | Result | Time | Files | Syslog |
|---|---|---|---|---|
| linux-devel-arm64 | OK | 123 | ||
| linux-devel-x86_64 | OK | 149 | ||
| source / vignettes | OK | 185 | ||
| linux-release-arm64 | OK | 113 | ||
| linux-release-x86_64 | OK | 155 | ||
| macos-release-arm64 | OK | 125 | ||
| macos-release-x86_64 | OK | 205 | ||
| macos-oldrel-arm64 | OK | 108 | ||
| macos-oldrel-x86_64 | OK | 315 | ||
| windows-devel-arm64 | OK | 237 | ||
| windows-devel-x86_64 | OK | 190 | ||
| windows-release-arm64 | OK | 251 | ||
| windows-release-x86_64 | OK | 144 | ||
| windows-oldrel-x86_64 | OK | 137 | ||
| wasm-release | OK | 102 |
Exports:acorr_diagnosticsacvf_bias_matrixafni_restricted_plancompatfit_noisenoise_acvfsandwich_from_whitened_residwhitenwhiten_apply
Dependencies:RcppRcppArmadillo
Readme and manuals
Help Manual
| Help page | Topics |
|---|---|
| Autocorrelation diagnostics for residuals | acorr_diagnostics |
| Bias matrix relating raw residual autocovariance to the truth | acvf_bias_matrix |
| Build an AFNI-style restricted AR plan from root parameters | afni_restricted_plan |
| Fit an AR/ARMA noise model (run-aware) and return a whitening plan | fit_noise |
| Run- and censor-aware noise autocovariance | noise_acvf |
| Pretty-print an fmriAR whitening plan | print.fmriAR_plan |
| GLS standard errors from whitened residuals | sandwich_from_whitened_resid |
| Fit and apply whitening in one call | whiten |
| Apply a whitening plan to design and data matrices | whiten_apply |