{ "_id": "6a1ad25f1d7bb097a09e2e2b", "Package": "EnrichedHeatmap", "Type": "Package", "Title": "Making Enriched Heatmaps", "Version": "1.43.0", "Date": "2026-01-30", "Authors@R": "person(\"Zuguang\", \"Gu\", email = \"guzuguang@suat-sz.edu.cn\", role = c(\"aut\", \"cre\"),\ncomment = c('ORCID'=\"0000-0002-7395-8709\"))", "VignetteBuilder": "knitr", "Description": "Enriched heatmap is a special type of heatmap which\nvisualizes the enrichment of genomic signals on specific target\nregions. Here we implement enriched heatmap by ComplexHeatmap\npackage. Since this type of heatmap is just a normal heatmap\nbut with some special settings, with the functionality of\nComplexHeatmap, it would be much easier to customize the\nheatmap as well as concatenating to a list of heatmaps to show\ncorrespondance between different data sources.", "biocViews": "Software, Visualization, Sequencing, GenomeAnnotation,\nCoverage", "URL": "https://github.com/jokergoo/EnrichedHeatmap", "License": "MIT + file LICENSE", "Config/pak/sysreqs": "libpng-dev perl", "Repository": "https://bioc.r-universe.dev", "Date/Publication": "2026-04-28 12:41:55 UTC", "RemoteUrl": "https://github.com/bioc/EnrichedHeatmap", "RemoteRef": "HEAD", "RemoteSha": "2d9b9e62a1c7edd13fca9b620a2e709f943e4bbf", "NeedsCompilation": "yes", "Packaged": { "Date": "2026-05-30 08:33:31 UTC", "User": "root" }, "Author": "Zuguang Gu [aut, cre] (ORCID: )", "Maintainer": "Zuguang Gu ", "MD5sum": "da8cf919f2e6667c058e0185d5c75217", "_user": "bioc", "_type": "src", "_file": "EnrichedHeatmap_1.43.0.tar.gz", "_fileid": "8a35333809c65625791525c0bb78efed7be7ff30a99df2ee8753ec308ff0262e", "_filesize": 1840111, "_sha256": "8a35333809c65625791525c0bb78efed7be7ff30a99df2ee8753ec308ff0262e", "_created": "2026-05-30T08:33:31.000Z", "_published": "2026-05-30T12:04:47.650Z", "_jobs": [ { "job": 78636865159, "time": 180, "config": "bioc-checks", "r": "4.6.0", "check": "ERROR", "artifact": "7306876429" }, { "job": 78636865172, "time": 204, "config": "linux-devel-arm64", "r": "4.7.0", "check": "NOTE", "artifact": "7306878955" }, { "job": 78636865177, "time": 229, "config": "linux-devel-x86_64", "r": "4.7.0", "check": "NOTE", "artifact": "7306881385" }, { "job": 78636865182, "time": 183, "config": "linux-release-arm64", "r": "4.6.0", "check": "NOTE", "artifact": "7306876765" }, { "job": 78636865162, "time": 200, "config": "linux-release-x86_64", "r": "4.6.0", "check": "NOTE", "artifact": "7306878407" }, { "job": 78636865184, "time": 123, "config": "macos-oldrel-arm64", "r": "4.5.3", "check": "NOTE", "artifact": "7308038040" }, { "job": 78636865180, "time": 252, "config": "macos-oldrel-x86_64", "r": "4.5.3", "check": "NOTE", "artifact": "7306883699" }, { "job": 78636865185, "time": 128, "config": "macos-release-arm64", "r": "4.6.0", "check": "NOTE", "artifact": "7308037302" }, { "job": 78636865179, "time": 598, "config": "macos-release-x86_64", "r": "4.6.0", "check": "NOTE", "artifact": "7306917091" }, { "job": 78636659347, "time": 237, "config": "source", "r": "4.6.0", "check": "OK", "artifact": "7306859119" }, { "job": 78636865156, "time": 129, "config": "wasm-release", "r": "4.6.0", "check": "OK", "artifact": "7306871784" }, { "job": 78636865178, "time": 182, "config": "windows-devel", "r": "4.7.0", "check": "NOTE", "artifact": "7306876683" }, { "job": 78636865168, "time": 176, "config": "windows-oldrel", "r": "4.5.3", "check": "NOTE", "artifact": "7306876131" }, { "job": 78636865174, "time": 192, "config": "windows-release", "r": "4.6.0", "check": "NOTE", "artifact": "7306877949" } ], "_bioccheck": { "error": 2, "warning": 3, "note": 13 }, "_buildurl": "https://github.com/r-universe/bioc/actions/runs/26679266287", "_status": "success", "_host": "GitHub-Actions", "_upstream": "https://github.com/bioc/EnrichedHeatmap", "_commit": { "id": "2d9b9e62a1c7edd13fca9b620a2e709f943e4bbf", "author": "A Wokaty ", "committer": "A Wokaty ", "message": "bump x.y.z version to odd y following creation of RELEASE_3_23 branch\n", "time": 1777380115 }, "_maintainer": { "name": "Zuguang Gu", "email": "guzuguang@suat-sz.edu.cn", "login": "jokergoo", "description": "A bioinformagician\n", "uuid": 449218, "orcid": "0000-0002-7395-8709" }, "_distro": "noble", "_registered": true, "_dependencies": [ { "package": "R", "version": ">= 4.0.0", "role": "Depends" }, { "package": "methods", "role": "Depends" }, { "package": "grid", "role": "Depends" }, { "package": "ComplexHeatmap", "version": ">= 2.11.0", "role": "Depends" }, { "package": "GenomicRanges", "role": "Depends" }, { "package": "Rcpp", "role": "LinkingTo" }, { "package": "matrixStats", "role": "Imports" }, { "package": "stats", "role": "Imports" }, { "package": "GetoptLong", "role": "Imports" }, { "package": "Rcpp", "role": "Imports" }, { "package": "utils", "role": "Imports" }, { "package": "locfit", "role": "Imports" }, { "package": "circlize", "version": ">= 0.4.5", "role": "Imports" }, { "package": "IRanges", "role": "Imports" }, { "package": "testthat", "version": ">= 0.3", "role": "Suggests" }, { "package": "knitr", "role": "Suggests" }, { "package": "markdown", "role": "Suggests" }, { "package": "rmarkdown", "role": "Suggests" }, { "package": "genefilter", "role": "Suggests" }, { "package": "RColorBrewer", "role": "Suggests" } ], "_owner": "bioc", "_selfowned": true, "_usedby": 0, "_updates": [ { "week": "2026-05", "n": 1 }, { "week": "2026-18", "n": 2 } ], "_tags": [], "_bioc": [ { "branch": "devel", "version": "1.43.0", "bioc": "3.24" }, { "branch": "release", "version": "1.42.0", "bioc": "3.23" } ], "_topics": [ "software", "visualization", "sequencing", "genomeannotation", "coverage", "cpp" ], "_stars": 201, "_contributors": [ { "user": "jokergoo", "count": 244, "uuid": 449218 }, { "user": "cola-recount2", "count": 25, "uuid": 49999269 }, { "user": "nturaga", "count": 14, "uuid": 2746443 }, { "user": "jwokaty", "count": 14, "uuid": 1744257 }, { "user": "dtenenba", "count": 6, "uuid": 2286826 }, { "user": "hpages", "count": 4, "uuid": 8810451 }, { "user": "vobencha", "count": 2, "uuid": 2466173 }, { "user": "link-ny", "count": 1, "uuid": 4392950 }, { "user": "petehaitch", "count": 1, "uuid": 1049741 }, { "user": "jimhester", "count": 1, "uuid": 205275 } ], "_userbio": { "uuid": 2286807, "type": "organization", "name": "Bioconductor", "description": "Software for the analysis and comprehension of high-throughput genomic data" }, "_downloads": { "count": 1728, "source": "https://www.bioconductor.org/packages/stats/bioc/EnrichedHeatmap" }, "_mentions": 12, "_devurl": "https://github.com/jokergoo/enrichedheatmap", "_searchresults": 538, "_rbuild": "4.6.0", "_assets": [ "extra/citation.cff", "extra/citation.html", "extra/citation.json", "extra/citation.txt", "extra/contents.json", "extra/EnrichedHeatmap.html", "extra/NEWS.html", "extra/NEWS.txt", "extra/readme.html", "extra/readme.md", "manual.pdf" ], "_homeurl": "https://github.com/jokergoo/enrichedheatmap", "_realowner": "bioc", "_cranurl": false, "_exports": [ "[.normalizedMatrix", "anno_enriched", "as.normalizedMatrix", "copyAttr", "default_smooth_fun", "discretize", "dist_by_closeness", "enriched_score", "EnrichedHeatmap", "extract_anno_enriched", "failed_rows", "getSignalsFromList", "makeWindows", "normalizeToMatrix", "print.normalizedMatrix", "rbind.normalizedMatrix" ], "_help": [ { "page": "Extract.normalizedMatrix", "title": "Subset normalized matrix by rows", "topics": [ "Extract.normalizedMatrix", "[.normalizedMatrix" ] }, { "page": "anno_enriched", "title": "Annotation Function to Show the Enrichment", "topics": [ "anno_enriched" ] }, { "page": "as.normalizedMatrix", "title": "Convert a Normal Matrix to a normalizedMatrix Object", "topics": [ "as.normalizedMatrix" ] }, { "page": "copyAttr", "title": "Copy Attributes to Another Object", "topics": [ "copyAttr" ] }, { "page": "default_smooth_fun", "title": "Default Smoothing function", "topics": [ "default_smooth_fun" ] }, { "page": "discretize", "title": "Discretize a Continuous Matrix to a Discrete Matrix", "topics": [ "discretize" ] }, { "page": "dist_by_closeness", "title": "Distance by Closeness", "topics": [ "dist_by_closeness" ] }, { "page": "enriched_score", "title": "Enriched Scores", "topics": [ "enriched_score" ] }, { "page": "EnrichedHeatmap", "title": "Constructor Method for the Enriched Heatmap", "topics": [ "EnrichedHeatmap" ] }, { "page": "extract_anno_enriched", "title": "Extarct Enrichment Annotation Graphics as a Separated Plot", "topics": [ "extract_anno_enriched" ] }, { "page": "failed_rows", "title": "Indices of Rows Failed from Smoothing", "topics": [ "failed_rows" ] }, { "page": "getSignalsFromList", "title": "Get Signals from a List", "topics": [ "getSignalsFromList" ] }, { "page": "makeWindows", "title": "Split Regions into Windows", "topics": [ "makeWindows" ] }, { "page": "normalizeToMatrix", "title": "Normalize Associations between Genomic Signals and Target Regions into a Matrix", "topics": [ "normalizeToMatrix" ] }, { "page": "print.normalizedMatrix", "title": "Print the Normalized Matrix", "topics": [ "print.normalizedMatrix" ] }, { "page": "rbind.normalizedMatrix", "title": "Bind Matrix by Rows", "topics": [ "rbind.normalizedMatrix" ] } ], "_readme": "https://github.com/bioc/EnrichedHeatmap/raw/HEAD/README.md", "_rundeps": [ "BiocGenerics", "circlize", "clue", "cluster", "codetools", "colorspace", "ComplexHeatmap", "crayon", "digest", "doParallel", "foreach", "generics", "GenomicRanges", "GetoptLong", "GlobalOptions", "IRanges", "iterators", "lattice", "locfit", "matrixStats", "png", "RColorBrewer", "Rcpp", "rjson", "S4Vectors", "Seqinfo", "shape" ], "_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": "EnrichedHeatmap.Rmd", "filename": "EnrichedHeatmap.html", "title": "The EnrichedHeatmap package", "author": "Zuguang Gu (z.gu@dkfz.de)", "engine": "knitr::rmarkdown", "headings": [], "created": "2015-09-28 14:38:37", "modified": "2024-02-27 12:07:00", "commits": 28 } ], "_score": 10.225764580669079, "_indexed": true, "_nocasepkg": "enrichedheatmap", "_universes": [ "bioc", "jokergoo" ], "_binaries": [ { "r": "4.7.0", "os": "linux", "version": "1.43.0", "date": "2026-05-30T08:36:20.000Z", "distro": "noble", "arch": "aarch64", "commit": "2d9b9e62a1c7edd13fca9b620a2e709f943e4bbf", "fileid": "bc41eb99368cb0a91482fd273d5eaf0ce127411693a8ad5cbafb51a0b37c3695", "status": "success", "check": "NOTE", "buildurl": "https://github.com/r-universe/bioc/actions/runs/26679266287" }, { "r": "4.7.0", "os": "linux", "version": "1.43.0", "date": "2026-05-30T08:36:42.000Z", "distro": "noble", "arch": "x86_64", "commit": "2d9b9e62a1c7edd13fca9b620a2e709f943e4bbf", "fileid": "a267b417ed532d48158b61f77f47caa85bc1203fac687cd7fb459b5ab5b8f2ac", "status": "success", "check": "NOTE", "buildurl": "https://github.com/r-universe/bioc/actions/runs/26679266287" }, { "r": "4.6.0", "os": "linux", "version": "1.43.0", "date": "2026-05-30T08:36:01.000Z", "distro": "noble", "arch": "aarch64", "commit": "2d9b9e62a1c7edd13fca9b620a2e709f943e4bbf", "fileid": "c3a3a47044b22637f8e59132f8bc1eb03ec04ff9eb0e788cff12239b39eb15cb", "status": "success", "check": "NOTE", "buildurl": "https://github.com/r-universe/bioc/actions/runs/26679266287" }, { "r": "4.6.0", "os": "linux", "version": "1.43.0", "date": "2026-05-30T08:36:09.000Z", "distro": "noble", "arch": "x86_64", "commit": "2d9b9e62a1c7edd13fca9b620a2e709f943e4bbf", "fileid": "f989a6cced6ab29068ea74e08982d6ce068093f8ef7edace23dd5cede576f87f", "status": "success", "check": "NOTE", "buildurl": "https://github.com/r-universe/bioc/actions/runs/26679266287" }, { "r": "4.5.3", "os": "mac", "version": "1.43.0", "date": "2026-05-30T12:03:41.000Z", "arch": "aarch64", "commit": "2d9b9e62a1c7edd13fca9b620a2e709f943e4bbf", "fileid": "ac6ffef67670b8b40653d9ea3e6507574bcb9543001f55f9c81d0877245b3036", "status": "success", "check": "NOTE", "buildurl": "https://github.com/r-universe/bioc/actions/runs/26679266287" }, { "r": "4.5.3", "os": "mac", "version": "1.43.0", "date": "2026-05-30T08:36:39.000Z", "arch": "x86_64", "commit": "2d9b9e62a1c7edd13fca9b620a2e709f943e4bbf", "fileid": "9271d0ee0715e5d17f9503aabcec2c2b89f78d546c1075f48b6b6637dd43a425", "status": "success", "check": "NOTE", "buildurl": "https://github.com/r-universe/bioc/actions/runs/26679266287" }, { "r": "4.6.0", "os": "mac", "version": "1.43.0", "date": "2026-05-30T12:03:28.000Z", "arch": "aarch64", "commit": "2d9b9e62a1c7edd13fca9b620a2e709f943e4bbf", "fileid": "591e2999234d83bc23b20cd75bfaa28461fe2d2af8d4bcc2578a8eed68406e6c", "status": "success", "check": "NOTE", "buildurl": "https://github.com/r-universe/bioc/actions/runs/26679266287" }, { "r": "4.6.0", "os": "mac", "version": "1.43.0", "date": "2026-05-30T08:40:12.000Z", "arch": "x86_64", "commit": "2d9b9e62a1c7edd13fca9b620a2e709f943e4bbf", "fileid": "7471b65d46cfbf9d53c7949a6ae6a98c785a0d8ea2c85f9ed30e52a6aa38c762", "status": "success", "check": "NOTE", "buildurl": "https://github.com/r-universe/bioc/actions/runs/26679266287" }, { "r": "4.6.0", "os": "wasm", "version": "1.43.0", "date": "2026-05-30T08:36:05.000Z", "arch": "emscripten", "commit": "2d9b9e62a1c7edd13fca9b620a2e709f943e4bbf", "fileid": "cdd4fdbd4d414b8421adef809cc7eea24339d50fa4b0f8f6017f0eaf8a19cde5", "status": "success", "buildurl": "https://github.com/r-universe/bioc/actions/runs/26679266287" }, { "r": "4.7.0", "os": "win", "version": "1.43.0", "date": "2026-05-30T08:35:08.000Z", "arch": "x86_64", "commit": "2d9b9e62a1c7edd13fca9b620a2e709f943e4bbf", "fileid": "b4a6dff99e58d1bd5f87520945d8c2b475203a8579fc262a0b00be2b077544e6", "status": "success", "check": "NOTE", "buildurl": "https://github.com/r-universe/bioc/actions/runs/26679266287" }, { "r": "4.5.3", "os": "win", "version": "1.43.0", "date": "2026-05-30T08:35:03.000Z", "arch": "x86_64", "commit": "2d9b9e62a1c7edd13fca9b620a2e709f943e4bbf", "fileid": "a9d8c975b253ba55a087be85a75829cb28e0f982139c56de0ce105ca5bf63901", "status": "success", "check": "NOTE", "buildurl": "https://github.com/r-universe/bioc/actions/runs/26679266287" }, { "r": "4.6.0", "os": "win", "version": "1.43.0", "date": "2026-05-30T08:35:09.000Z", "arch": "x86_64", "commit": "2d9b9e62a1c7edd13fca9b620a2e709f943e4bbf", "fileid": "001fef21ff24494600e98ef45345d1e79121e8cf192bd8f6637fd83498299707", "status": "success", "check": "NOTE", "buildurl": "https://github.com/r-universe/bioc/actions/runs/26679266287" } ] }