{ "_id": "6a1f19c9b401979e7341f032", "Package": "phynd", "Type": "Package", "Title": "Fast Design-Free Physiological Denoising", "Version": "0.0.0.9000", "Authors@R": "person(\"Ben\", \"Buchsbaum\", email = \"ben@example.org\", role = c(\"aut\", \"cre\"))", "Description": "Fast, design-free physiological denoising inspired by\nPHYCAA+ using low-rank dynamic component extraction with\noptional DiCCA/DiPCA integration.", "License": "MIT + file LICENSE", "Encoding": "UTF-8", "Roxygen": "list(markdown = TRUE)", "RoxygenNote": "7.3.3", "VignetteBuilder": "knitr", "Config/testthat/edition": "3", "Repository": "https://bbuchsbaum.r-universe.dev", "Date/Publication": "2026-02-14 21:07:22 UTC", "RemoteUrl": "https://github.com/bbuchsbaum/phynd", "RemoteRef": "HEAD", "RemoteSha": "9a2c3522dfc1f267f6d2eb793073c11fb1c34fae", "NeedsCompilation": "yes", "Packaged": { "Date": "2026-05-15 09:58:28 UTC", "User": "root" }, "Author": "Ben Buchsbaum [aut, cre]", "Maintainer": "Ben Buchsbaum ", "MD5sum": "0fe2c704ce161061167fe0ec57964f6e", "_user": "bbuchsbaum", "_type": "src", "_file": "phynd_0.0.0.9000.tar.gz", "_fileid": "54d3c8bf989f512af5322d4a5264a17ea5ebdd4257a3864ba15eeccd5c358aad", "_filesize": 161634, "_sha256": "54d3c8bf989f512af5322d4a5264a17ea5ebdd4257a3864ba15eeccd5c358aad", "_created": "2026-05-15T09:58:28.000Z", "_published": "2026-06-02T17:58:33.327Z", "_distro": "noble", "_jobs": [ { "job": 79137574498, "time": 149, "config": "linux-devel-arm64", "r": "4.7.0", "check": "WARNING", "artifact": "7014622053" }, { "job": 79137574202, "time": 158, "config": "linux-devel-x86_64", "r": "4.7.0", "check": "WARNING", "artifact": "7014624703" }, { "job": 79137574338, "time": 142, "config": "linux-release-arm64", "r": "4.6.0", "check": "WARNING", "artifact": "7014620086" }, { "job": 79137574144, "time": 147, "config": "linux-release-x86_64", "r": "4.6.0", "check": "WARNING", "artifact": "7014621874" }, { "job": 79137574963, "time": 99, "config": "macos-oldrel-arm64", "r": "4.5.3", "check": "WARNING", "artifact": "7014622667" }, { "job": 79137574375, "time": 288, "config": "macos-oldrel-x86_64", "r": "4.5.3", "check": "WARNING", "artifact": "7014672765" }, { "job": 79137574145, "time": 114, "config": "macos-release-arm64", "r": "4.6.0", "check": "WARNING", "artifact": "7014618591" }, { "job": 79137574523, "time": 188, "config": "macos-release-x86_64", "r": "4.6.0", "check": "WARNING", "artifact": "7014638667" }, { "job": 79137573813, "time": 230, "config": "source", "r": "4.6.0", "check": "OK", "artifact": "7014578136" }, { "job": 79137573364, "time": 132, "config": "wasm-release", "r": "4.6.0", "check": "OK", "artifact": "7365785597" }, { "job": 79137574399, "time": 384, "config": "windows-devel", "r": "4.7.0", "check": "FAIL", "artifact": "" }, { "job": 79137574319, "time": 388, "config": "windows-oldrel", "r": "4.5.3", "check": "FAIL", "artifact": "" }, { "job": 79137574595, "time": 313, "config": "windows-release", "r": "4.6.0", "check": "FAIL", "artifact": "" } ], "_buildurl": "https://github.com/r-universe/bbuchsbaum/actions/runs/25911695616", "_status": "success", "_host": "GitHub-Actions", "_upstream": "https://github.com/bbuchsbaum/phynd", "_commit": { "id": "9a2c3522dfc1f267f6d2eb793073c11fb1c34fae", "author": "bbuchsbaum ", "committer": "bbuchsbaum ", "message": "Initial commit: phynd R package for fast design-free physiological denoising\n\nPHYCAA+-inspired low-rank dynamic component extraction with optional DiCCA/DiPCA\nintegration. Includes C++ kernels via RcppArmadillo, CompCor denoising, wNN\ndiffusion energy, benchmark/QC utilities, pkgdown docs, and testthat suite.\n\nCo-Authored-By: Claude Opus 4.6 \n", "time": 1771103242 }, "_maintainer": { "name": "Ben Buchsbaum", "email": "ben@example.org" }, "_registered": true, "_dependencies": [ { "package": "R", "version": ">= 4.1.0", "role": "Depends" }, { "package": "Rcpp", "role": "LinkingTo" }, { "package": "RcppArmadillo", "role": "LinkingTo" }, { "package": "methods", "role": "Imports" }, { "package": "stats", "role": "Imports" }, { "package": "utils", "role": "Imports" }, { "package": "Rcpp", "role": "Imports" }, { "package": "rsvd", "role": "Imports" }, { "package": "testthat", "version": ">= 3.0.0", "role": "Suggests" }, { "package": "dipca", "role": "Suggests" }, { "package": "neuroim2", "role": "Suggests" }, { "package": "jsonlite", "role": "Suggests" }, { "package": "knitr", "role": "Suggests" }, { "package": "rmarkdown", "role": "Suggests" } ], "_owner": "bbuchsbaum", "_selfowned": true, "_usedby": 0, "_updates": [ { "week": "2026-07", "n": 1 } ], "_tags": [], "_stars": 0, "_contributors": [ { "user": "bbuchsbaum", "count": 1, "uuid": 53819 } ], "_userbio": { "uuid": 53819, "type": "user", "name": "bbuchsbaum" }, "_downloads": { "count": 0, "source": "https://cranlogs.r-pkg.org/downloads/total/last-month/phynd" }, "_devurl": "https://github.com/bbuchsbaum/phynd", "_searchresults": 0, "_topics": [ "cpp" ], "_rbuild": "4.6.0", "_assets": [ "extra/citation.cff", "extra/citation.html", "extra/citation.json", "extra/citation.txt", "extra/contents.json", "extra/phynd.html", "manual.pdf" ], "_cranurl": false, "_exports": [ "benchmark_fast_phy_denoise", "compcor_denoise", "compute_design_free_qc", "compute_wNN_diff_energy", "extract_caa_oneshot", "fast_phy_denoise", "write_qc_artifact" ], "_help": [ { "page": "benchmark_fast_phy_denoise", "title": "Benchmark fast_phy_denoise across dimensions and SVD engines", "topics": [ "benchmark_fast_phy_denoise" ] }, { "page": "compcor_denoise", "title": "CompCor-style denoising (aCompCor / tCompCor)", "topics": [ "compcor_denoise" ] }, { "page": "compute_design_free_qc", "title": "Compute design-free QC summary", "topics": [ "compute_design_free_qc" ] }, { "page": "compute_wNN_diff_energy", "title": "Compute fast wNN map using differenced energy", "topics": [ "compute_wNN_diff_energy" ] }, { "page": "extract_caa_oneshot", "title": "One-shot CAA extraction in whitened PC subspace", "topics": [ "extract_caa_oneshot" ] }, { "page": "fast_phy_denoise", "title": "Fast design-free PHYCAA+-style denoising", "topics": [ "fast_phy_denoise" ] }, { "page": "write_qc_artifact", "title": "Write QC artifact to file", "topics": [ "write_qc_artifact" ] } ], "_rundeps": [ "lattice", "Matrix", "Rcpp", "RcppArmadillo", "rsvd" ], "_sysdeps": [ { "shlib": "libstdc++", "package": "libstdc++6", "source": "gcc", "version": "14.2.0-4ubuntu2~24.04.1", "name": "c++", "homepage": "http://gcc.gnu.org/", "description": "GNU Standard C++ Library v3" } ], "_vignettes": [ { "source": "phynd.Rmd", "filename": "phynd.html", "title": "Getting started with phynd", "engine": "knitr::rmarkdown", "headings": [ "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" ], "created": "2026-02-14 21:07:22", "modified": "2026-02-14 21:07:22", "commits": 1 } ], "_score": 2, "_indexed": true, "_nocasepkg": "phynd", "_universes": [ "bbuchsbaum" ], "_binaries": [ { "r": "4.7.0", "os": "linux", "version": "0.0.0.9000", "date": "2026-05-15T10:00:54.000Z", "distro": "noble", "arch": "aarch64", "commit": "9a2c3522dfc1f267f6d2eb793073c11fb1c34fae", "fileid": "6df21d409349ffb4aed2f767fcaa8814757ba92b405b5bf961c41bda36817589", "status": "success", "check": "WARNING", "buildurl": "https://github.com/r-universe/bbuchsbaum/actions/runs/25911695616" }, { "r": "4.7.0", "os": "linux", "version": "0.0.0.9000", "date": "2026-05-15T10:01:02.000Z", "distro": "noble", "arch": "x86_64", "commit": "9a2c3522dfc1f267f6d2eb793073c11fb1c34fae", "fileid": "3b1f20f1aa976654faef972edb10ebe70b37aa08b47f801eebe9c1b2452ce4bb", "status": "success", "check": "WARNING", "buildurl": "https://github.com/r-universe/bbuchsbaum/actions/runs/25911695616" }, { "r": "4.6.0", "os": "linux", "version": "0.0.0.9000", "date": "2026-05-15T10:00:50.000Z", "distro": "noble", "arch": "aarch64", "commit": "9a2c3522dfc1f267f6d2eb793073c11fb1c34fae", "fileid": "157449db7772a547524fd9e0e626ba87c7d4002ad76959752a26fc3eebc54ff9", "status": "success", "check": "WARNING", "buildurl": "https://github.com/r-universe/bbuchsbaum/actions/runs/25911695616" }, { "r": "4.6.0", "os": "linux", "version": "0.0.0.9000", "date": "2026-05-15T10:00:54.000Z", "distro": "noble", "arch": "x86_64", "commit": "9a2c3522dfc1f267f6d2eb793073c11fb1c34fae", "fileid": "7b563ae136a027f29c1eecd65ba91ed552bef0878e5a6f0d8a5f12f2184a3c19", "status": "success", "check": "WARNING", "buildurl": "https://github.com/r-universe/bbuchsbaum/actions/runs/25911695616" }, { "r": "4.5.3", "os": "mac", "version": "0.0.0.9000", "date": "2026-05-15T10:01:04.000Z", "arch": "aarch64", "commit": "9a2c3522dfc1f267f6d2eb793073c11fb1c34fae", "fileid": "fd9b59dec5ceecc30ed1678c66a6232a48fc405923569b66dc1e948e036605e9", "status": "success", "check": "WARNING", "buildurl": "https://github.com/r-universe/bbuchsbaum/actions/runs/25911695616" }, { "r": "4.5.3", "os": "mac", "version": "0.0.0.9000", "date": "2026-05-15T10:03:06.000Z", "arch": "x86_64", "commit": "9a2c3522dfc1f267f6d2eb793073c11fb1c34fae", "fileid": "cf297290f391cfe0403e8063a36bcf05e40d6eeb4583f9599ee7938f40dc2827", "status": "success", "check": "WARNING", "buildurl": "https://github.com/r-universe/bbuchsbaum/actions/runs/25911695616" }, { "r": "4.6.0", "os": "mac", "version": "0.0.0.9000", "date": "2026-05-15T10:00:43.000Z", "arch": "aarch64", "commit": "9a2c3522dfc1f267f6d2eb793073c11fb1c34fae", "fileid": "7ae8a24a72cf930b9892bccfe85035e54281680a4cbd77a58872214a2fe86150", "status": "success", "check": "WARNING", "buildurl": "https://github.com/r-universe/bbuchsbaum/actions/runs/25911695616" }, { "r": "4.6.0", "os": "mac", "version": "0.0.0.9000", "date": "2026-05-15T10:01:19.000Z", "arch": "x86_64", "commit": "9a2c3522dfc1f267f6d2eb793073c11fb1c34fae", "fileid": "8bafaa6db76292e7af560838f602b0cb66aff8ab4a73d799d087c0dc1492ba88", "status": "success", "check": "WARNING", "buildurl": "https://github.com/r-universe/bbuchsbaum/actions/runs/25911695616" }, { "r": "4.6.0", "os": "wasm", "version": "0.0.0.9000", "date": "2026-06-02T17:58:03.000Z", "arch": "emscripten", "commit": "9a2c3522dfc1f267f6d2eb793073c11fb1c34fae", "fileid": "5d5204320094bda1028d5c24a3f4685c31c32cf5f571f6836faa746d2539ccc4", "status": "success", "buildurl": "https://github.com/r-universe/bbuchsbaum/actions/runs/25911695616" } ] }