{ "_id": "6a1f6b18b401979e7342e6d8", "Package": "PinPath", "Type": "Package", "Title": "Visualization of Omics Data on Pathway Diagrams", "Version": "0.99.3", "Date": "2026-03-12", "Authors@R": "c(\nperson(\"Jarno\", \"Koetsier\", role = c(\"aut\",\"cre\"), email = \"jarno.koetsier@gmail.com\", comment = c(ORCID = \"0000-0002-7981-1345\")),\nperson(\"Lars\", \"Eijssen\", role = \"aut\", comment = c(ORCID = \"0000-0002-6473-2839\")),\nperson(\"Egon\", \"Willighagen\", role = \"aut\", comment = c(ORCID = \"0000-0001-7542-0286\")),\nperson(\"Stichting Terre - The Dutch Rett Syndrome Foundation\", role=\"fnd\"))", "Encoding": "UTF-8", "Description": "With PinPath, you can visualize omics data onto pathways\ndiagrams from WikiPathways and KEGG.", "License": "MIT + file LICENSE", "URL": "https://github.com/SyNUM-lab/PinPath", "BugReports": "https://github.com/SyNUM-lab/PinPath/issues", "biocViews": "Pathways, Visualization, GraphAndNetwork, KEGG", "NeedsCompilation": "no", "VignetteBuilder": "knitr", "RoxygenNote": "7.3.3", "Config/testthat/edition": "3", "Config/pak/sysreqs": "libfontconfig1-dev libfreetype6-dev libfribidi-dev\nlibglpk-dev libharfbuzz-dev libmagick++-dev gsfonts libicu-dev\nlibpng-dev libxml2-dev libssl-dev zlib1g-dev", "Repository": "https://bioc.r-universe.dev", "Date/Publication": "2026-04-23 14:40:32 UTC", "RemoteUrl": "https://github.com/bioc/PinPath", "RemoteRef": "HEAD", "RemoteSha": "718d7b8a242959395bc3826ae501dc35fdcfb47a", "Packaged": { "Date": "2026-06-02 23:39:08 UTC", "User": "root" }, "Author": "Jarno Koetsier [aut, cre] (ORCID:\n),\nLars Eijssen [aut] (ORCID: ),\nEgon Willighagen [aut] (ORCID: ),\nStichting Terre - The Dutch Rett Syndrome Foundation [fnd]", "Maintainer": "Jarno Koetsier ", "MD5sum": "9fb7b088eaaaf459515c7c1529679772", "_user": "bioc", "_type": "src", "_file": "PinPath_0.99.3.tar.gz", "_fileid": "a16992c0e1bbe75152b16133881acb75b8890cdd4238233837139be9a9f55f3c", "_filesize": 2450476, "_sha256": "a16992c0e1bbe75152b16133881acb75b8890cdd4238233837139be9a9f55f3c", "_created": "2026-06-02T23:39:08.000Z", "_published": "2026-06-02T23:45:28.706Z", "_jobs": [ { "job": 79194253587, "time": 235, "config": "bioc-checks", "r": "4.6.0", "check": "OK", "artifact": "7372459665" }, { "job": 79194253681, "time": 341, "config": "linux-devel-x86_64", "r": "4.7.0", "check": "OK", "artifact": "7372484229" }, { "job": 79194253611, "time": 317, "config": "linux-release-x86_64", "r": "4.6.0", "check": "OK", "artifact": "7372479158" }, { "job": 79194253603, "time": 123, "config": "macos-oldrel-arm64", "r": "4.5.3", "check": "OK", "artifact": "7372434509" }, { "job": 79194253599, "time": 127, "config": "macos-release-arm64", "r": "4.6.0", "check": "OK", "artifact": "7372435391" }, { "job": 79193717959, "time": 283, "config": "source", "r": "4.6.0", "check": "OK", "artifact": "7372406229" }, { "job": 79194253600, "time": 209, "config": "wasm-release", "r": "4.6.0", "check": "OK", "artifact": "7372453843" }, { "job": 79194253601, "time": 179, "config": "windows-devel", "r": "4.7.0", "check": "OK", "artifact": "7372446988" }, { "job": 79194253615, "time": 241, "config": "windows-oldrel", "r": "4.5.3", "check": "OK", "artifact": "7372461790" }, { "job": 79194253621, "time": 183, "config": "windows-release", "r": "4.6.0", "check": "OK", "artifact": "7372448090" } ], "_bioccheck": { "error": 0, "warning": 0, "note": 0 }, "_buildurl": "https://github.com/r-universe/bioc/actions/runs/26854355127", "_status": "success", "_host": "GitHub-Actions", "_upstream": "https://github.com/bioc/PinPath", "_commit": { "id": "718d7b8a242959395bc3826ae501dc35fdcfb47a", "author": "Jarno Koetsier ", "committer": "Jarno Koetsier ", "message": "Address Bioconductor feedback\n", "time": 1776955232 }, "_maintainer": { "name": "Jarno Koetsier", "email": "jarno.koetsier@gmail.com", "login": "jarnokoetsier", "description": "", "uuid": 79576459, "orcid": "0000-0002-7981-1345" }, "_distro": "noble", "_registered": true, "_dependencies": [ { "package": "R", "version": ">= 4.5.0", "role": "Depends" }, { "package": "grDevices", "role": "Imports" }, { "package": "graphics", "role": "Imports" }, { "package": "stats", "role": "Imports" }, { "package": "XML", "role": "Imports" }, { "package": "xml2", "role": "Imports" }, { "package": "magrittr", "role": "Imports" }, { "package": "dplyr", "role": "Imports" }, { "package": "tidyr", "role": "Imports" }, { "package": "stringr", "role": "Imports" }, { "package": "magick", "role": "Imports" }, { "package": "shape", "role": "Imports" }, { "package": "grid", "role": "Imports" }, { "package": "gridBase", "role": "Imports" }, { "package": "svglite", "role": "Imports" }, { "package": "AnnotationDbi", "role": "Imports" }, { "package": "igraph", "role": "Imports" }, { "package": "ggraph", "role": "Imports" }, { "package": "ggplot2", "role": "Imports" }, { "package": "BiocFileCache", "role": "Imports" }, { "package": "BiocGenerics", "role": "Imports" }, { "package": "rlang", "role": "Imports" }, { "package": "testthat", "version": ">= 3.0.0", "role": "Suggests" }, { "package": "BiocStyle", "role": "Suggests" }, { "package": "knitr", "role": "Suggests" }, { "package": "rmarkdown", "role": "Suggests" }, { "package": "rWikiPathways", "role": "Suggests" }, { "package": "org.Hs.eg.db", "role": "Suggests" }, { "package": "metaboliteIDmapping", "role": "Suggests" } ], "_owner": "bioc", "_selfowned": true, "_usedby": 0, "_updates": [ { "week": "2026-04", "n": 9 }, { "week": "2026-05", "n": 5 }, { "week": "2026-06", "n": 5 }, { "week": "2026-08", "n": 1 }, { "week": "2026-09", "n": 6 }, { "week": "2026-11", "n": 15 }, { "week": "2026-12", "n": 3 }, { "week": "2026-13", "n": 5 }, { "week": "2026-17", "n": 2 } ], "_tags": [], "_topics": [ "pathways", "visualization", "graphandnetwork", "kegg", "omics", "pathway", "wikipathways" ], "_stars": 5, "_contributors": [ { "user": "jarnokoetsier", "count": 53, "uuid": 79576459 }, { "user": "egonw", "count": 1, "uuid": 26721 } ], "_userbio": { "uuid": 2286807, "type": "organization", "name": "Bioconductor", "description": "Software for the analysis and comprehension of high-throughput genomic data" }, "_devurl": "https://github.com/synum-lab/pinpath", "_rbuild": "4.6.0", "_assets": [ "extra/citation.cff", "extra/citation.html", "extra/citation.json", "extra/citation.txt", "extra/contents.json", "extra/NEWS.html", "extra/NEWS.txt", "extra/PinPath.html", "extra/readme.html", "extra/readme.md", "manual.pdf" ], "_cranurl": false, "_exports": [ "defaultColorList", "drawGPML", "drawKGML", "GPML2Network", "KGML2Network" ], "_help": [ { "page": "defaultColorList", "title": "Make default colorList", "topics": [ "defaultColorList" ] }, { "page": "drawGPML", "title": "Draw pathway from GPML file", "topics": [ "drawGPML" ] }, { "page": "drawKGML", "title": "Draw pathway from KGML file", "topics": [ "drawKGML" ] }, { "page": "GPML2Network", "title": "Draw network from GPML file", "topics": [ "GPML2Network" ] }, { "page": "KGML2Network", "title": "Draw network from KGML file", "topics": [ "KGML2Network" ] } ], "_readme": "https://github.com/bioc/PinPath/raw/HEAD/README.md", "_rundeps": [ "AnnotationDbi", "askpass", "base64enc", "Biobase", "BiocFileCache", "BiocGenerics", "Biostrings", "bit", "bit64", "blob", "cachem", "cli", "cpp11", "crayon", "curl", "DBI", "dbplyr", "dplyr", "farver", "fastmap", "filelock", "generics", "ggforce", "ggplot2", "ggraph", "ggrepel", "glue", "graphlayouts", "gridBase", "gridExtra", "gtable", "httr", "httr2", "igraph", "IRanges", "isoband", "jsonlite", "KEGGREST", "labeling", "lattice", "lifecycle", "magick", "magrittr", "MASS", "Matrix", "memoise", "mime", "openssl", "pillar", "pkgconfig", "png", "polyclip", "purrr", "R6", "rappdirs", "RColorBrewer", "Rcpp", "RcppArmadillo", "rlang", "RSQLite", "S4Vectors", "S7", "scales", "Seqinfo", "shape", "stringi", "stringr", "svglite", "sys", "systemfonts", "textshaping", "tibble", "tidygraph", "tidyr", "tidyselect", "tweenr", "utf8", "vctrs", "viridis", "viridisLite", "withr", "XML", "xml2", "XVector" ], "_vignettes": [ { "source": "WikiPathways-visualization.Rmd", "filename": "WikiPathways-visualization.html", "title": "WikiPathways visualization ", "author": "by Jarno Koetsier", "engine": "knitr::rmarkdown", "headings": [ "Introduction", "Installation", "Dataset", "Set colors", "Plot pathway", "Plot network", "Session info" ], "created": "2026-03-10 16:44:19", "modified": "2026-04-23 14:40:32", "commits": 5 }, { "source": "KEGG-visualization.Rmd", "filename": "KEGG-visualization.html", "title": "KEGG visualization ", "author": "by Jarno Koetsier", "engine": "knitr::rmarkdown", "headings": [ "Introduction", "Installation", "Dataset", "Set colors", "Plot pathway", "Plot network", "Session info" ], "created": "2026-03-10 16:44:19", "modified": "2026-04-23 14:40:32", "commits": 5 } ], "_score": 4.653212513775344, "_indexed": true, "_nocasepkg": "pinpath", "_universes": [ "bioc", "jarnokoetsier", "synum-lab" ], "_binaries": [ { "r": "4.7.0", "os": "linux", "version": "0.99.3", "date": "2026-06-02T23:44:19.000Z", "distro": "noble", "commit": "718d7b8a242959395bc3826ae501dc35fdcfb47a", "fileid": "867a255c543916cbf27b9ec9c7c03b46eb5e21e402ac2b96ebebe5d157309dd3", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/bioc/actions/runs/26854355127" }, { "r": "4.6.0", "os": "linux", "version": "0.99.3", "date": "2026-06-02T23:43:54.000Z", "distro": "noble", "commit": "718d7b8a242959395bc3826ae501dc35fdcfb47a", "fileid": "4f68b5614def72e32b07606498347c2d7e668d6e58cc2545c71e541cf7813a80", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/bioc/actions/runs/26854355127" }, { "r": "4.5.3", "os": "mac", "version": "0.99.3", "date": "2026-06-02T23:40:57.000Z", "commit": "718d7b8a242959395bc3826ae501dc35fdcfb47a", "fileid": "a3165cb680419ff36e9a22435fbef3c782938cb1c0a88eba48d6c8d34d95ddcc", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/bioc/actions/runs/26854355127" }, { "r": "4.6.0", "os": "mac", "version": "0.99.3", "date": "2026-06-02T23:41:02.000Z", "commit": "718d7b8a242959395bc3826ae501dc35fdcfb47a", "fileid": "07ec8941b6d4b7e219a045a894a6be14f6a7d564fec4c53f5df96bccfd5744c4", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/bioc/actions/runs/26854355127" }, { "r": "4.6.0", "os": "wasm", "version": "0.99.3", "date": "2026-06-02T23:42:54.000Z", "commit": "718d7b8a242959395bc3826ae501dc35fdcfb47a", "fileid": "656eda00dcba2a067efe72f1b58ee8d503f28ec1e04eb6be7ff3c0a8b5f6e576", "status": "success", "buildurl": "https://github.com/r-universe/bioc/actions/runs/26854355127" }, { "r": "4.7.0", "os": "win", "version": "0.99.3", "date": "2026-06-02T23:41:36.000Z", "commit": "718d7b8a242959395bc3826ae501dc35fdcfb47a", "fileid": "d83f91c40499fee26876ff0fd868eb5501c0cdd9c085dfe5478bff1f49bcf613", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/bioc/actions/runs/26854355127" }, { "r": "4.5.3", "os": "win", "version": "0.99.3", "date": "2026-06-02T23:42:28.000Z", "commit": "718d7b8a242959395bc3826ae501dc35fdcfb47a", "fileid": "3037cd37379241a1018701f0c066fc03ba81857fe2aceeaa84abe07a9ce58eb8", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/bioc/actions/runs/26854355127" }, { "r": "4.6.0", "os": "win", "version": "0.99.3", "date": "2026-06-02T23:41:31.000Z", "commit": "718d7b8a242959395bc3826ae501dc35fdcfb47a", "fileid": "e4493ec2c78d7c53175073dfa469ee9db79ddd7f28f0e662a49867ccf01406cf", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/bioc/actions/runs/26854355127" } ] }