{ "_id": "6a6311c4d3420cf5dfdb6aa1", "Package": "PeakSegOptimal", "Authors@R": "person(given = c(\"Toby\", \"Dylan\"),\nfamily = \"Hocking\",\nrole = c(\"aut\", \"cre\"),\nemail = \"toby.hocking@r-project.org\")", "Version": "2024.10.1", "License": "GPL-3", "URL": "https://github.com/tdhock/PeakSegOptimal", "BugReports": "https://github.com/tdhock/PeakSegOptimal/issues", "Title": "Optimal Segmentation Subject to Up-Down Constraints", "Description": "Computes optimal changepoint models using the Poisson\nlikelihood for non-negative count data, subject to the PeakSeg\nconstraint: the first change must be up, second change down,\nthird change up, etc. For more info about the models and\nalgorithms, read \"Constrained Dynamic Programming and\nSupervised Penalty Learning Algorithms for Peak Detection\"\n by TD Hocking et al.", "Remotes": [ "tdhock/cosegData" ], "Repository": "https://tdhock.r-universe.dev", "Date/Publication": "2026-03-27 18:50:00 UTC", "RemoteUrl": "https://github.com/tdhock/peaksegoptimal", "RemoteRef": "HEAD", "RemoteSha": "40b762a4ac7f0ff13455848029e686248a6f63d5", "NeedsCompilation": "yes", "Packaged": { "Date": "2026-07-24 06:21:43 UTC", "User": "root" }, "Author": "Toby Dylan Hocking [aut, cre]", "Maintainer": "Toby Dylan Hocking ", "_user": "tdhock", "_type": "src", "_file": "PeakSegOptimal_2024.10.1.tar.gz", "_fileid": "https://r2.ropensci.org/a313be30730cb4f39e95e3ef8b021332ad8bfd205c70a41c46400a3da055e6a2", "_filesize": 261664, "_sha256": "a313be30730cb4f39e95e3ef8b021332ad8bfd205c70a41c46400a3da055e6a2", "_expires": "2026-11-01T07:18:27.000Z", "_created": "2026-07-24T06:21:43.000Z", "_published": "2026-07-24T07:18:28.570Z", "_jobs": [ { "job": 89414813543, "time": 151, "config": "linux-devel-arm64", "r": "4.7.0", "check": "NOTE", "artifact": "8588429324" }, { "job": 89414813504, "time": 175, "config": "linux-devel-x86_64", "r": "4.7.0", "check": "NOTE", "artifact": "8588436530" }, { "job": 89414813569, "time": 145, "config": "linux-release-arm64", "r": "4.6.1", "check": "OK", "artifact": "8588427929" }, { "job": 89414813497, "time": 170, "config": "linux-release-x86_64", "r": "4.6.1", "check": "OK", "artifact": "8588434863" }, { "job": 89414813527, "time": 137, "config": "macos-oldrel-arm64", "r": "4.5.3", "check": "OK", "artifact": "8589449346" }, { "job": 89414813509, "time": 259, "config": "macos-oldrel-x86_64", "r": "4.5.3", "check": "OK", "artifact": "8589468989" }, { "job": 89414813534, "time": 174, "config": "macos-release-arm64", "r": "4.6.1", "check": "OK", "artifact": "8589474439" }, { "job": 89414813510, "time": 267, "config": "macos-release-x86_64", "r": "4.6.1", "check": "OK", "artifact": "8589493615" }, { "job": 89414329559, "time": 201, "config": "source", "r": "4.6.1", "check": "OK", "artifact": "8588385157" }, { "job": 89414813439, "time": 107, "config": "wasm-release", "r": "4.6.0", "check": "OK", "artifact": "8588416580" }, { "job": 89414813511, "time": 224, "config": "windows-devel-x86_64", "r": "4.7.0", "check": "NOTE", "artifact": "8588449806" }, { "job": 89414813507, "time": 298, "config": "windows-oldrel-x86_64", "r": "4.5.3", "check": "OK", "artifact": "8588470937" }, { "job": 89414813472, "time": 223, "config": "windows-release-x86_64", "r": "4.6.1", "check": "OK", "artifact": "8588449950" } ], "_host": "GitHub-Actions", "_buildurl": "https://github.com/r-universe/tdhock/actions/runs/30071882198", "_status": "success", "_upstream": "https://github.com/tdhock/peaksegoptimal", "_commit": { "id": "40b762a4ac7f0ff13455848029e686248a6f63d5", "author": "Toby Dylan Hocking ", "committer": "GitHub ", "message": "Merge pull request #25 from williamzhang7792/github-actions\n\nconvert CI from Travis to GitHub Actions", "time": 1774637400 }, "_maintainer": { "name": "Toby Dylan Hocking", "email": "toby.hocking@r-project.org", "login": "tdhock", "description": "", "uuid": 932850 }, "_distro": "resolute", "_registered": true, "_dependencies": [ { "package": "R", "version": ">= 2.10", "role": "Depends" }, { "package": "penaltyLearning", "role": "Imports" }, { "package": "PeakSegDP", "version": ">= 2016.08.06", "role": "Suggests" }, { "package": "cosegData", "role": "Suggests" }, { "package": "ggplot2", "role": "Suggests" }, { "package": "testthat", "role": "Suggests" }, { "package": "data.table", "version": ">= 1.9.8", "role": "Suggests" } ], "_owner": "tdhock", "_selfowned": true, "_usedby": 0, "_updates": [ { "week": "2026-13", "n": 1 } ], "_tags": [], "_stars": 6, "_contributors": [ { "user": "tdhock", "count": 253, "uuid": 932850 }, { "user": "williamzhang7792", "count": 6, "uuid": 141804129 }, { "user": "azamlynny", "count": 1, "uuid": 32941757 } ], "_userbio": { "uuid": 932850, "type": "user", "name": "Toby Dylan Hocking", "followers": 420 }, "_downloads": { "count": 221, "source": "https://cranlogs.r-pkg.org/downloads/total/last-month/PeakSegOptimal" }, "_devurl": "https://github.com/tdhock/peaksegoptimal", "_searchresults": 41, "_topics": [ "cpp" ], "_rbuild": "4.6.1", "_assets": [ "extra/citation.cff", "extra/citation.html", "extra/citation.json", "extra/citation.txt", "extra/contents.json", "extra/NEWS.html", "extra/NEWS.txt", "extra/PeakSegOptimal.html", "manual.pdf" ], "_homeurl": "https://github.com/tdhock/peaksegoptimal", "_realowner": "tdhock", "_cranurl": true, "_releases": [ { "version": "2017.06.20", "date": "2017-06-21" }, { "version": "2017.07.11", "date": "2017-07-11" }, { "version": "2017.07.12", "date": "2017-07-12" }, { "version": "2018.05.25", "date": "2018-05-25" }, { "version": "2024.1.24", "date": "2024-01-24" }, { "version": "2024.10.1", "date": "2024-10-02" } ], "_exports": [ "oracleModelComplexity", "PeakSegFPOP", "PeakSegFPOPchrom", "PeakSegPDPA", "PeakSegPDPAchrom", "PeakSegPDPAInf", "PoissonLoss" ], "_datasets": [ { "name": "H3K4me3_PGP_immune_chunk24", "title": "H3K4me3_PGP_immune ChIP-seq data set chunk 24", "object": "H3K4me3_PGP_immune_chunk24", "file": "H3K4me3_PGP_immune_chunk24.RData", "class": [ "data.frame" ], "fields": [ "cell.type", "sample.id", "chromStart", "chromEnd", "coverage" ], "rows": 66713, "table": true, "tojson": true }, { "name": "H3K4me3_XJ_immune_chunk1", "title": "H3K4me3_XJ_immune chunk 1", "object": "H3K4me3_XJ_immune_chunk1", "file": "H3K4me3_XJ_immune_chunk1.RData", "class": [ "data.frame" ], "fields": [ "cell.type", "sample.id", "chromStart", "chromEnd", "coverage" ], "rows": 18027, "table": true, "tojson": true } ], "_help": [ { "page": "H3K4me3_PGP_immune_chunk24", "title": "H3K4me3_PGP_immune ChIP-seq data set chunk 24", "topics": [ "H3K4me3_PGP_immune_chunk24" ] }, { "page": "H3K4me3_XJ_immune_chunk1", "title": "H3K4me3_XJ_immune chunk 1", "topics": [ "H3K4me3_XJ_immune_chunk1" ] }, { "page": "oracleModelComplexity", "title": "oracleModelComplexity", "topics": [ "oracleModelComplexity" ] }, { "page": "PeakSegFPOP", "title": "PeakSegFPOP", "topics": [ "PeakSegFPOP" ] }, { "page": "PeakSegFPOPchrom", "title": "PeakSegFPOPchrom", "topics": [ "PeakSegFPOPchrom" ] }, { "page": "PeakSegPDPA", "title": "PeakSegPDPA", "topics": [ "PeakSegPDPA" ] }, { "page": "PeakSegPDPAchrom", "title": "PeakSegPDPAchrom", "topics": [ "PeakSegPDPAchrom" ] }, { "page": "PeakSegPDPAInf", "title": "PeakSegPDPAInf", "topics": [ "PeakSegPDPAInf" ] }, { "page": "PoissonLoss", "title": "PoissonLoss", "topics": [ "PoissonLoss" ] } ], "_rundeps": [ "cli", "cpp11", "data.table", "farver", "ggplot2", "glue", "gtable", "isoband", "labeling", "lifecycle", "penaltyLearning", "R6", "RColorBrewer", "rlang", "S7", "scales", "vctrs", "viridisLite", "withr" ], "_sysdeps": [ { "shlib": "libstdc++", "package": "libstdc++6", "source": "gcc", "version": "16-20260322-1ubuntu1", "name": "c++", "homepage": "http://gcc.gnu.org/", "description": "GNU Standard C++ Library v3" } ], "_score": 3.6919651027673606, "_indexed": true, "_nocasepkg": "peaksegoptimal", "_universes": [ "tdhock" ], "_binaries": [ { "r": "4.7.0", "os": "linux", "version": "2024.10.1", "date": "2026-07-24T06:23:36.000Z", "distro": "resolute", "arch": "aarch64", "commit": "40b762a4ac7f0ff13455848029e686248a6f63d5", "fileid": "https://r2.ropensci.org/ad06cda471346336a16f6275fb18b08978ff56a1041169a647ed124312ac3f65", "status": "success", "check": "NOTE", "buildurl": "https://github.com/r-universe/tdhock/actions/runs/30071882198" }, { "r": "4.7.0", "os": "linux", "version": "2024.10.1", "date": "2026-07-24T06:23:54.000Z", "distro": "resolute", "arch": "x86_64", "commit": "40b762a4ac7f0ff13455848029e686248a6f63d5", "fileid": "https://r2.ropensci.org/61c6d6b53516a3256741a47835cf0d75a01719ae556c0b9ce234b52de2b419a8", "status": "success", "check": "NOTE", "buildurl": "https://github.com/r-universe/tdhock/actions/runs/30071882198" }, { "r": "4.6.1", "os": "linux", "version": "2024.10.1", "date": "2026-07-24T06:23:34.000Z", "distro": "resolute", "arch": "aarch64", "commit": "40b762a4ac7f0ff13455848029e686248a6f63d5", "fileid": "https://r2.ropensci.org/d7aa3aad39dc37b06650af37250ee6f1e36308ff95541b722c0238f7c628b4dd", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/tdhock/actions/runs/30071882198" }, { "r": "4.6.1", "os": "linux", "version": "2024.10.1", "date": "2026-07-24T06:24:03.000Z", "distro": "resolute", "arch": "x86_64", "commit": "40b762a4ac7f0ff13455848029e686248a6f63d5", "fileid": "https://r2.ropensci.org/6abcd403e7a3936562fc8e5a7b59f8ab26905ccbccb141c11171b3c95ae744e7", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/tdhock/actions/runs/30071882198" }, { "r": "4.5.3", "os": "mac", "version": "2024.10.1", "date": "2026-07-24T07:15:11.000Z", "arch": "aarch64", "commit": "40b762a4ac7f0ff13455848029e686248a6f63d5", "fileid": "https://r2.ropensci.org/334651a66e1a7def9d23c9bc065e5d39f3fe6a54abfafcd162f1a6d66a748b01", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/tdhock/actions/runs/30071882198" }, { "r": "4.5.3", "os": "mac", "version": "2024.10.1", "date": "2026-07-24T07:15:16.000Z", "arch": "x86_64", "commit": "40b762a4ac7f0ff13455848029e686248a6f63d5", "fileid": "https://r2.ropensci.org/351e99e940bb5d4a43480a1cf464ba995da221ec3dabbf870b2b9281ddb13698", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/tdhock/actions/runs/30071882198" }, { "r": "4.6.1", "os": "mac", "version": "2024.10.1", "date": "2026-07-24T07:15:58.000Z", "arch": "aarch64", "commit": "40b762a4ac7f0ff13455848029e686248a6f63d5", "fileid": "https://r2.ropensci.org/1acc5830e4839f329d106a6d44c3df993a6f95920605c95508bf9f009db7e32e", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/tdhock/actions/runs/30071882198" }, { "r": "4.6.1", "os": "mac", "version": "2024.10.1", "date": "2026-07-24T07:16:23.000Z", "arch": "x86_64", "commit": "40b762a4ac7f0ff13455848029e686248a6f63d5", "fileid": "https://r2.ropensci.org/70f77b558b214e8dbd09f74f8d637a7e468012502cee69f0cf918ecdfc322cd4", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/tdhock/actions/runs/30071882198" }, { "r": "4.6.0", "os": "wasm", "version": "2024.10.1", "date": "2026-07-24T06:23:44.000Z", "arch": "emscripten", "commit": "40b762a4ac7f0ff13455848029e686248a6f63d5", "fileid": "https://r2.ropensci.org/bcf03b910e4a960ba6d7790cdff76023001dad51636500326dfee562b4c04710", "status": "success", "buildurl": "https://github.com/r-universe/tdhock/actions/runs/30071882198" }, { "r": "4.7.0", "os": "win", "version": "2024.10.1", "date": "2026-07-24T06:22:48.000Z", "arch": "x86_64", "commit": "40b762a4ac7f0ff13455848029e686248a6f63d5", "fileid": "https://r2.ropensci.org/e27cfb991bb394b3a4b3657cc370a69d44778c1a678eb0d7c7ce7e96783ad504", "status": "success", "check": "NOTE", "buildurl": "https://github.com/r-universe/tdhock/actions/runs/30071882198" }, { "r": "4.5.3", "os": "win", "version": "2024.10.1", "date": "2026-07-24T06:22:50.000Z", "arch": "x86_64", "commit": "40b762a4ac7f0ff13455848029e686248a6f63d5", "fileid": "https://r2.ropensci.org/1ebad832f392f47283db4b5e2ccd0772f444d49db494ff4afcfa4822bb2b30d6", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/tdhock/actions/runs/30071882198" }, { "r": "4.6.1", "os": "win", "version": "2024.10.1", "date": "2026-07-24T06:23:25.000Z", "arch": "x86_64", "commit": "40b762a4ac7f0ff13455848029e686248a6f63d5", "fileid": "https://r2.ropensci.org/1db1aa998b08324701bd292a67612c9907aa00807b7e9e55c69f7a0ce276859c", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/tdhock/actions/runs/30071882198" } ] }