{ "_id": "6a1acafb1d7bb097a09ddb08", "Package": "IdeoViz", "Type": "Package", "Title": "Plots data (continuous/discrete) along chromosomal ideogram", "Version": "1.49.0", "Date": "2024-02-15", "Author": "Shraddha Pai , Jingliang Ren", "Maintainer": "Shraddha Pai ", "biocViews": "Visualization,Microarray", "Description": "Plots data associated with arbitrary genomic intervals\nalong chromosomal ideogram.", "License": "GPL-2", "RoxygenNote": "6.1.1", "Config/pak/sysreqs": "make libbz2-dev liblzma-dev libxml2-dev libssl-dev\nxz-utils zlib1g-dev", "Repository": "https://bioc.r-universe.dev", "Date/Publication": "2026-04-28 12:39:53 UTC", "RemoteUrl": "https://github.com/bioc/IdeoViz", "RemoteRef": "HEAD", "RemoteSha": "5d3a8c18173106f664550bf9c75068ed2facce6c", "NeedsCompilation": "no", "Packaged": { "Date": "2026-05-30 07:58:13 UTC", "User": "root" }, "MD5sum": "22cc22b29613e433ae73da53df4d22db", "_user": "bioc", "_type": "src", "_file": "IdeoViz_1.49.0.tar.gz", "_fileid": "33f304b7616f20ef2d6f096bf412d92af5290ffb360f817c0cb4c69d9b415188", "_filesize": 548045, "_sha256": "33f304b7616f20ef2d6f096bf412d92af5290ffb360f817c0cb4c69d9b415188", "_created": "2026-05-30T07:58:13.000Z", "_published": "2026-05-30T11:33:15.639Z", "_jobs": [ { "job": 78635062682, "time": 190, "config": "bioc-checks", "r": "4.6.0", "check": "ERROR", "artifact": "7306673893" }, { "job": 78635062701, "time": 273, "config": "linux-devel-x86_64", "r": "4.7.0", "check": "WARNING", "artifact": "7306681904" }, { "job": 78635062690, "time": 277, "config": "linux-release-x86_64", "r": "4.6.0", "check": "WARNING", "artifact": "7306682277" }, { "job": 78635062709, "time": 156, "config": "macos-oldrel-arm64", "r": "4.5.3", "check": "WARNING", "artifact": "7307867249" }, { "job": 78635062711, "time": 188, "config": "macos-release-arm64", "r": "4.6.0", "check": "WARNING", "artifact": "7307870974" }, { "job": 78634888547, "time": 202, "config": "source", "r": "4.6.0", "check": "OK", "artifact": "7306654612" }, { "job": 78635062680, "time": 132, "config": "wasm-release", "r": "4.6.0", "check": "OK", "artifact": "7306668068" }, { "job": 78635062720, "time": 191, "config": "windows-devel", "r": "4.7.0", "check": "WARNING", "artifact": "7306674124" }, { "job": 78635062722, "time": 155, "config": "windows-oldrel", "r": "4.5.3", "check": "WARNING", "artifact": "7306670618" }, { "job": 78635062717, "time": 176, "config": "windows-release", "r": "4.6.0", "check": "WARNING", "artifact": "7306672546" } ], "_bioccheck": { "error": 2, "warning": 5, "note": 14 }, "_buildurl": "https://github.com/r-universe/bioc/actions/runs/26678596240", "_status": "success", "_host": "GitHub-Actions", "_upstream": "https://github.com/bioc/IdeoViz", "_commit": { "id": "5d3a8c18173106f664550bf9c75068ed2facce6c", "author": "A Wokaty ", "committer": "A Wokaty ", "message": "bump x.y.z version to odd y following creation of RELEASE_3_23 branch\n", "time": 1777379993 }, "_maintainer": { "name": "Shraddha Pai", "email": "shraddha.pai@utoronto.ca", "login": "shraddhapai", "linkedin": "in/shraddhapai", "description": "Computational biologist. {Genomics, Data Science} for Precision Medicine. Lab head, @RealPaiLab; \nAssistant Professor, University of Toronto", "uuid": 7502338 }, "_distro": "noble", "_registered": true, "_dependencies": [ { "package": "R", "version": ">= 3.5.0", "role": "Depends" }, { "package": "Biobase", "role": "Depends" }, { "package": "IRanges", "role": "Depends" }, { "package": "GenomicRanges", "role": "Depends" }, { "package": "RColorBrewer", "role": "Depends" }, { "package": "rtracklayer", "role": "Depends" }, { "package": "graphics", "role": "Depends" }, { "package": "GenomeInfoDb", "role": "Depends" } ], "_owner": "bioc", "_selfowned": true, "_usedby": 0, "_updates": [ { "week": "2025-44", "n": 2 }, { "week": "2026-18", "n": 2 } ], "_tags": [], "_bioc": [ { "branch": "devel", "version": "1.49.0", "bioc": "3.24" }, { "branch": "release", "version": "1.48.0", "bioc": "3.23" } ], "_topics": [ "visualization", "microarray" ], "_userbio": { "uuid": 2286807, "type": "organization", "name": "Bioconductor", "description": "Software for the analysis and comprehension of high-throughput genomic data" }, "_downloads": { "count": 470, "source": "https://www.bioconductor.org/packages/stats/bioc/IdeoViz" }, "_mentions": 3, "_searchresults": 29, "_rbuild": "4.6.0", "_assets": [ "extra/citation.cff", "extra/citation.html", "extra/citation.json", "extra/citation.txt", "extra/contents.json", "extra/IdeoViz.html", "extra/NEWS.html", "extra/NEWS.txt", "extra/readme.html", "extra/readme.md", "manual.pdf" ], "_realowner": "bioc", "_cranurl": false, "_exports": [ "avgByBin", "getBins", "getIdeo", "plotChromValuePair", "plotOnIdeo" ], "_datasets": [ { "name": "binned_fullGenome", "title": "Data for example 3.", "object": "binned_fullGenome", "file": "binned_fullGenome.rda", "class": [ "GRanges" ], "fields": [], "table": false, "tojson": false }, { "name": "binned_multiSeries", "title": "Data for vignette example 1.", "object": "binned_multiSeries", "file": "binned_multiSeries.rda", "class": [ "GRanges" ], "fields": [], "table": false, "tojson": false }, { "name": "binned_singleSeries", "title": "Data for example 2.", "object": "binned_singleSeries", "file": "binned_singleSeries.rda", "class": [ "GRanges" ], "fields": [], "table": false, "tojson": false }, { "name": "GSM733664_broadPeaks", "title": "Data for vignette example 4.", "object": "GSM733664_broadPeaks", "file": "GSM733664_broadPeaks.txt.gz", "class": [ "data.frame" ], "fields": [ "chrom", "chromStart", "chromEnd", "name", "score", "strand", "signalValue", "pValue", "qValue" ], "rows": 14825, "table": true, "tojson": true }, { "name": "hg18_ideo", "title": "Ideogram table for hg18", "object": "hg18_ideo", "file": "hg18_ideo.txt.gz", "class": [ "data.frame" ], "fields": [ "chrom", "chromStart", "chromEnd", "name", "gieStain" ], "rows": 862, "table": true, "tojson": true }, { "name": "wins", "title": "Data for vignette example 1.", "object": "examples", "file": "examples.rda", "class": [ "GRanges" ], "fields": [], "table": false, "tojson": false }, { "name": "wins", "title": "Data for vignette example 1.", "object": "wins", "file": "wins.rda", "class": [ "GRanges" ], "fields": [], "table": false, "tojson": false }, { "name": "wins_discrete", "title": "Data for example 2.", "object": "examples", "file": "examples.rda", "class": [ "GRanges" ], "fields": [], "table": false, "tojson": false }, { "name": "wins_discrete", "title": "Data for example 2.", "object": "wins_discrete", "file": "wins_discrete.rda", "class": [ "GRanges" ], "fields": [], "table": false, "tojson": false }, { "name": "wins_entiregenome", "title": "Data for example 3.", "object": "examples", "file": "examples.rda", "class": [ "GRanges" ], "fields": [], "table": false, "tojson": false }, { "name": "wins_entiregenome", "title": "Data for example 3.", "object": "wins_entiregenome", "file": "wins_entiregenome.rda", "class": [ "GRanges" ], "fields": [], "table": false, "tojson": false } ], "_help": [ { "page": "IdeoViz-package", "title": "Plots continuous or discrete data along chromosomal ideogram", "topics": [ "IdeoViz-package" ] }, { "page": "avgByBin", "title": "Aggregates data by genomic bins", "topics": [ "avgByBin" ] }, { "page": "binned_fullGenome", "title": "Data for example 3.", "topics": [ "binned_fullGenome" ] }, { "page": "binned_multiSeries", "title": "Data for vignette example 1.", "topics": [ "binned_multiSeries" ] }, { "page": "binned_singleSeries", "title": "Data for example 2.", "topics": [ "binned_singleSeries" ] }, { "page": "getBins", "title": "getBins", "topics": [ "getBins" ] }, { "page": "getIdeo", "title": "Download ideogram table from UCSC", "topics": [ "getIdeo" ] }, { "page": "GSM733664_broadPeaks", "title": "Data for vignette example 4.", "topics": [ "GSM733664_broadPeaks" ] }, { "page": "hg18_ideo", "title": "Ideogram table for hg18", "topics": [ "hg18_ideo" ] }, { "page": "plotChromValuePair", "title": "Base function which plots the ideogram and superimposed data for a single chromosome. plotOnIdeo() calls this function and stacks the resulting output.", "topics": [ "plotChromValuePair" ] }, { "page": "plotOnIdeo", "title": "Plot data superimposed on chromosomal ideogram", "topics": [ "plotOnIdeo" ] }, { "page": "wins", "title": "Data for vignette example 1.", "topics": [ "wins" ] }, { "page": "wins_discrete", "title": "Data for example 2.", "topics": [ "wins_discrete" ] }, { "page": "wins_entiregenome", "title": "Data for example 3.", "topics": [ "wins_entiregenome" ] } ], "_readme": "https://github.com/bioc/IdeoViz/raw/HEAD/README.md", "_rundeps": [ "abind", "askpass", "BH", "Biobase", "BiocBaseUtils", "BiocGenerics", "BiocIO", "BiocParallel", "Biostrings", "bitops", "cigarillo", "codetools", "cpp11", "crayon", "curl", "DelayedArray", "formatR", "futile.logger", "futile.options", "generics", "GenomeInfoDb", "GenomicAlignments", "GenomicRanges", "httr", "IRanges", "jsonlite", "lambda.r", "lattice", "Matrix", "MatrixGenerics", "matrixStats", "mime", "openssl", "R6", "RColorBrewer", "RCurl", "restfulr", "Rhtslib", "rjson", "Rsamtools", "rtracklayer", "S4Arrays", "S4Vectors", "Seqinfo", "snow", "SparseArray", "SummarizedExperiment", "sys", "UCSC.utils", "XML", "XVector", "yaml" ], "_score": 3.9395192526186187, "_indexed": true, "_nocasepkg": "ideoviz", "_universes": [ "bioc", "shraddhapai" ], "_binaries": [ { "r": "4.7.0", "os": "linux", "version": "1.49.0", "date": "2026-05-30T08:01:44.000Z", "distro": "noble", "commit": "5d3a8c18173106f664550bf9c75068ed2facce6c", "fileid": "8a8a20aec092450231618c341bf6a5baf0098b2cf7cd3e50017277d73ce8fbe9", "status": "success", "check": "WARNING", "buildurl": "https://github.com/r-universe/bioc/actions/runs/26678596240" }, { "r": "4.6.0", "os": "linux", "version": "1.49.0", "date": "2026-05-30T08:01:47.000Z", "distro": "noble", "commit": "5d3a8c18173106f664550bf9c75068ed2facce6c", "fileid": "2e81f7f7a29417a46da7c3ffd84aca55477809088eb2124860f5a522b413e8ce", "status": "success", "check": "WARNING", "buildurl": "https://github.com/r-universe/bioc/actions/runs/26678596240" }, { "r": "4.5.3", "os": "mac", "version": "1.49.0", "date": "2026-05-30T11:31:05.000Z", "commit": "5d3a8c18173106f664550bf9c75068ed2facce6c", "fileid": "6aa244bb30c983115fdd76cdddeab1f3fe064cb483ff8b61713903da5b50a173", "status": "success", "check": "WARNING", "buildurl": "https://github.com/r-universe/bioc/actions/runs/26678596240" }, { "r": "4.6.0", "os": "mac", "version": "1.49.0", "date": "2026-05-30T11:31:29.000Z", "commit": "5d3a8c18173106f664550bf9c75068ed2facce6c", "fileid": "93875d15421e0b70b10cfe5e0e5d050331b423443384659df40f8af94ce106e4", "status": "success", "check": "WARNING", "buildurl": "https://github.com/r-universe/bioc/actions/runs/26678596240" }, { "r": "4.6.0", "os": "wasm", "version": "1.49.0", "date": "2026-05-30T08:00:57.000Z", "commit": "5d3a8c18173106f664550bf9c75068ed2facce6c", "fileid": "68b8c2c95e6980468ed26a7dd4a5a92d0c55481ea849e2c7641359ae1cf8fe95", "status": "success", "buildurl": "https://github.com/r-universe/bioc/actions/runs/26678596240" }, { "r": "4.7.0", "os": "win", "version": "1.49.0", "date": "2026-05-30T08:00:13.000Z", "commit": "5d3a8c18173106f664550bf9c75068ed2facce6c", "fileid": "c2c386805057f1e2ae122d4509be0d5bda883a5fdfd126fd802b7dacc64d3815", "status": "success", "check": "WARNING", "buildurl": "https://github.com/r-universe/bioc/actions/runs/26678596240" }, { "r": "4.5.3", "os": "win", "version": "1.49.0", "date": "2026-05-30T07:59:52.000Z", "commit": "5d3a8c18173106f664550bf9c75068ed2facce6c", "fileid": "16f1918978ca1bb0ebd11b717f72136e531772208d4ca2231c01b37aefc375a4", "status": "success", "check": "WARNING", "buildurl": "https://github.com/r-universe/bioc/actions/runs/26678596240" }, { "r": "4.6.0", "os": "win", "version": "1.49.0", "date": "2026-05-30T08:00:05.000Z", "commit": "5d3a8c18173106f664550bf9c75068ed2facce6c", "fileid": "bea33c8fc018af70b4423528132cda8e3f0ce5d48fdfc1c9909ccb61bfaeb681", "status": "success", "check": "WARNING", "buildurl": "https://github.com/r-universe/bioc/actions/runs/26678596240" } ] }