Why phynd? | Quick example | How the pipeline works | Stage 1: The wNN map | Stage 2-3: Component extraction | Stage 4: Cleaned output | Tuning parameters | CompCor baseline | Diagnostics and timing | Saving QC artifacts | Next steps | References
Package: phynd 0.0.0.9000
Ben Buchsbaum
phynd: Fast Design-Free Physiological Denoising
Fast, design-free physiological denoising inspired by PHYCAA+ using low-rank dynamic component extraction with optional DiCCA/DiPCA integration.
Authors:
phynd_0.0.0.9000.tar.gz
phynd_0.0.0.9000.tgz(r-4.6-x86_64)phynd_0.0.0.9000.tgz(r-4.6-arm64)phynd_0.0.0.9000.tgz(r-4.5-x86_64)phynd_0.0.0.9000.tgz(r-4.5-arm64)
phynd_0.0.0.9000.tar.gz(r-4.7-arm64)phynd_0.0.0.9000.tar.gz(r-4.7-x86_64)phynd_0.0.0.9000.tar.gz(r-4.6-arm64)phynd_0.0.0.9000.tar.gz(r-4.6-x86_64)
phynd_0.0.0.9000.tgz(r-4.6-emscripten)
manual.pdf |manual.html✨
DESCRIPTION
card.svg |card.png
phynd/json (API)
| # Install 'phynd' in R: |
| install.packages('phynd', repos = c('https://bbuchsbaum.r-universe.dev', 'https://cloud.r-project.org')) |
Bug tracker:https://github.com/bbuchsbaum/phynd/issues
Last updated from:9a2c3522df. Checks:8 WARNING, 2 OK, 3 FAIL. Indexed: yes.
| Target | Result | Time | Files | Syslog |
|---|---|---|---|---|
| linux-devel-arm64 | WARNING | 169 | ||
| linux-devel-x86_64 | WARNING | 161 | ||
| source / vignettes | OK | 203 | ||
| linux-release-arm64 | WARNING | 152 | ||
| linux-release-x86_64 | WARNING | 156 | ||
| macos-release-arm64 | WARNING | 160 | ||
| macos-release-x86_64 | WARNING | 175 | ||
| macos-oldrel-arm64 | WARNING | 113 | ||
| macos-oldrel-x86_64 | WARNING | 159 | ||
| windows-devel | FAIL | 259 | ||
| windows-release | FAIL | 252 | ||
| windows-oldrel | FAIL | 232 | ||
| wasm-release | OK | 129 |
Exports:benchmark_fast_phy_denoisecompcor_denoisecompute_design_free_qccompute_wNN_diff_energyextract_caa_oneshotfast_phy_denoisewrite_qc_artifact
Dependencies:latticeMatrixRcppRcppArmadillorsvd
Readme and manuals
Help Manual
| Help page | Topics |
|---|---|
| Benchmark fast_phy_denoise across dimensions and SVD engines | benchmark_fast_phy_denoise |
| CompCor-style denoising (aCompCor / tCompCor) | compcor_denoise |
| Compute design-free QC summary | compute_design_free_qc |
| Compute fast wNN map using differenced energy | compute_wNN_diff_energy |
| One-shot CAA extraction in whitened PC subspace | extract_caa_oneshot |
| Fast design-free PHYCAA+-style denoising | fast_phy_denoise |
| Write QC artifact to file | write_qc_artifact |