{ "_id": "6ad1f5f1fdc1a00814f1e8ba", "Package": "RepViz", "Type": "Package", "Title": "Replicate oriented Visualization of a genomic region", "Version": "1.29.0", "Author": "Thomas Faux, Kalle Rytkönen, Asta Laiho, Laura L. Elo", "Maintainer": "Thomas Faux, Asta Laiho \n", "Description": "RepViz enables the view of a genomic region in a simple\nand efficient way. RepViz allows simultaneous viewing of both\nintra- and intergroup variation in sequencing counts of the\nstudied conditions, as well as their comparison to the output\nfeatures (e.g. identified peaks) from user selected data\nanalysis methods.The RepViz tool is primarily designed for\nchromatin data such as ChIP-seq and ATAC-seq, but can also be\nused with other sequencing data such as RNA-seq, or\ncombinations of different types of genomic data.", "License": "GPL-3", "Encoding": "UTF-8", "RoxygenNote": "6.1.1", "VignetteBuilder": "knitr", "biocViews": "WorkflowStep, Visualization, Sequencing, ChIPSeq, ATACSeq,\nSoftware, Coverage, GenomicVariation", "Config/pak/sysreqs": "libbz2-dev libicu-dev liblzma-dev libpng-dev\nlibxml2-dev libssl-dev xz-utils zlib1g-dev", "Repository": "https://bioc.r-universe.dev", "Date/Publication": "2026-04-28 12:50:03 UTC", "RemoteUrl": "https://github.com/bioc/RepViz", "RemoteRef": "HEAD", "RemoteSha": "baa39d77a1aff453b2120af9c484aacde76b9d06", "NeedsCompilation": "no", "Packaged": { "Date": "2026-10-16 09:12:51 UTC", "User": "root" }, "_user": "bioc", "_type": "src", "_file": "RepViz_1.29.0.tar.gz", "_fileid": "https://r2.ropensci.org/071c77f26a38ad775210d1b930967cef860f7475ee20193055a927eca7a0a436", "_filesize": 455151, "_sha256": "071c77f26a38ad775210d1b930967cef860f7475ee20193055a927eca7a0a436", "_expires": "2027-01-24T10:01:19.000Z", "_created": "2026-10-16T09:12:51.000Z", "_published": "2026-10-16T10:01:21.848Z", "_buildurl": "https://github.com/r-universe/bioc/actions/runs/38878332248", "_status": "success", "_host": "GitHub-Actions", "_bioccheck": { "error": 1, "warning": 0, "note": 9 }, "_upstream": "https://github.com/bioc/RepViz", "_commit": { "id": "baa39d77a1aff453b2120af9c484aacde76b9d06", "author": "A Wokaty ", "committer": "A Wokaty ", "message": "bump x.y.z version to odd y following creation of RELEASE_3_23 branch\n", "time": 1777380603 }, "_maintainer": { "name": "Thomas Faux, Asta Laiho", "email": "asta.laiho@utu.fi", "login": "thomasfaux", "description": "", "uuid": 7881032 }, "_distro": "resolute", "_jobs": [ { "job": 116900747357, "time": 150, "config": "bioc-checks", "r": "4.6.1", "check": "ERROR", "artifact": "12036169071" }, { "job": 116900747514, "time": 367, "config": "linux-devel-x86_64", "r": "4.7.0", "check": "WARNING", "artifact": "12037560586" }, { "job": 116900747604, "time": 357, "config": "linux-release-x86_64", "r": "4.6.1", "check": "WARNING", "artifact": "12036264366" }, { "job": 116900747426, "time": 181, "config": "macos-oldrel-arm64", "r": "4.5.3", "check": "WARNING", "artifact": "12039196326" }, { "job": 116900747290, "time": 212, "config": "macos-release-arm64", "r": "4.6.1", "check": "WARNING", "artifact": "12038791740" }, { "job": 116898852363, "time": 301, "config": "source", "r": "4.6.1", "check": "OK", "artifact": "12036194568" }, { "job": 116900747312, "time": 132, "config": "wasm-release", "r": "4.6.0", "check": "OK", "artifact": "12035844624" }, { "job": 116900747440, "time": 177, "config": "windows-devel-x86_64", "r": "4.7.0", "check": "WARNING", "artifact": "12036727501" }, { "job": 116900747341, "time": 144, "config": "windows-oldrel-x86_64", "r": "4.5.3", "check": "WARNING", "artifact": "12036179137" }, { "job": 116900747390, "time": 164, "config": "windows-release-x86_64", "r": "4.6.1", "check": "WARNING", "artifact": "12036672629" } ], "_registered": true, "_dependencies": [ { "package": "R", "version": ">= 3.5.1", "role": "Depends" }, { "package": "GenomicRanges", "version": ">= 1.30.0", "role": "Depends" }, { "package": "Rsamtools", "version": ">= 1.34.1", "role": "Depends" }, { "package": "IRanges", "version": ">= 2.14.0", "role": "Depends" }, { "package": "biomaRt", "version": ">= 2.36.0", "role": "Depends" }, { "package": "S4Vectors", "version": ">= 0.18.0", "role": "Depends" }, { "package": "graphics", "role": "Depends" }, { "package": "grDevices", "role": "Depends" }, { "package": "utils", "role": "Depends" }, { "package": "rmarkdown", "role": "Suggests" }, { "package": "knitr", "role": "Suggests" }, { "package": "testthat", "role": "Suggests" } ], "_owner": "bioc", "_selfowned": true, "_usedby": 0, "_updates": [ { "week": "2025-44", "n": 2 }, { "week": "2026-18", "n": 2 } ], "_tags": [], "_bioc": [ { "branch": "devel", "version": "1.29.0", "bioc": "3.24", "repository": "bioc" }, { "branch": "release", "version": "1.28.0", "bioc": "3.23", "repository": "bioc" } ], "_topics": [ "workflowstep", "visualization", "sequencing", "chipseq", "atacseq", "software", "coverage", "genomicvariation" ], "_userbio": { "uuid": 2286807, "type": "organization", "name": "Bioconductor", "followers": 477, "description": "Software for the analysis and comprehension of high-throughput genomic data" }, "_downloads": { "count": 426, "source": "https://www.bioconductor.org/packages/stats/bioc/RepViz" }, "_mentions": 1, "_searchresults": 1, "_rbuild": "4.6.1", "_assets": [ "extra/citation.cff", "extra/citation.html", "extra/citation.json", "extra/citation.txt", "extra/contents.json", "extra/manual.pdf", "extra/NEWS.html", "extra/NEWS.txt", "extra/RepViz.html" ], "_realowner": "bioc", "_cranurl": false, "_exports": [ "RepViz" ], "_help": [ { "page": "RepViz", "title": "Plot a genomic region", "topics": [ "RepViz" ] } ], "_rundeps": [ "AnnotationDbi", "askpass", "BH", "Biobase", "BiocBaseUtils", "BiocFileCache", "BiocGenerics", "BiocParallel", "biomaRt", "Biostrings", "bit", "bit64", "bitops", "blob", "cachem", "cli", "codetools", "cpp11", "crayon", "curl", "DBI", "dbplyr", "dplyr", "fastmap", "filelock", "formatR", "futile.logger", "futile.options", "generics", "GenomicRanges", "glue", "hms", "httr", "httr2", "IRanges", "jsonlite", "KEGGREST", "lambda.r", "lifecycle", "magrittr", "memoise", "mime", "openssl", "pillar", "pkgconfig", "png", "prettyunits", "progress", "purrr", "R6", "Rhtslib", "rlang", "Rsamtools", "RSQLite", "S4Vectors", "Seqinfo", "snow", "stringi", "stringr", "sys", "tibble", "tidyr", "tidyselect", "utf8", "vctrs", "withr", "xml2", "XVector" ], "_vignettes": [ { "source": "RepViz.Rmd", "filename": "RepViz.html", "title": "RepViz-vignette", "author": "Thomas Faux, Kalle Rytkönen, Asta Laiho, Laura L. Elo", "engine": "knitr::rmarkdown", "headings": [ "Introduction", "Before starting", "The input files", "The BAM input file:", "The BED input file", "The plotting function" ], "created": "2019-04-10 08:23:09", "modified": "2019-04-25 11:32:21", "commits": 2 } ], "_score": 3.3010299956639813, "_indexed": true, "_nocasepkg": "repviz", "_universes": [ "bioc", "thomasfaux" ], "_binaries": [ { "r": "4.7.0", "os": "linux", "version": "1.29.0", "date": "2026-10-16T09:17:33.000Z", "distro": "resolute", "commit": "baa39d77a1aff453b2120af9c484aacde76b9d06", "fileid": "https://r2.ropensci.org/9a44ff0f2fc47c13b6b7c396579d936d00e5f8a9513addff80fcc27e7c9453e4", "status": "success", "check": "WARNING", "buildurl": "https://github.com/r-universe/bioc/actions/runs/38878332248" }, { "r": "4.6.1", "os": "linux", "version": "1.29.0", "date": "2026-10-16T09:16:59.000Z", "distro": "resolute", "commit": "baa39d77a1aff453b2120af9c484aacde76b9d06", "fileid": "https://r2.ropensci.org/d9280c3ad894f24bc74bb1b7be36dc0368ab1a75915f6dcb814a045c5e89f654", "status": "success", "check": "WARNING", "buildurl": "https://github.com/r-universe/bioc/actions/runs/38878332248" }, { "r": "4.5.3", "os": "mac", "version": "1.29.0", "date": "2026-10-16T09:58:59.000Z", "commit": "baa39d77a1aff453b2120af9c484aacde76b9d06", "fileid": "https://r2.ropensci.org/a33c0b9073c33c68a55a6942bff67cfbc98cfbb3b66712b90a5bcdfd0a5e6d3f", "status": "success", "check": "WARNING", "buildurl": "https://github.com/r-universe/bioc/actions/runs/38878332248" }, { "r": "4.6.1", "os": "mac", "version": "1.29.0", "date": "2026-10-16T09:59:01.000Z", "commit": "baa39d77a1aff453b2120af9c484aacde76b9d06", "fileid": "https://r2.ropensci.org/bec8322ff13c0aaa1e4f5e583f46fcdc1309fcf179ffd2fbf8f29156668c046b", "status": "success", "check": "WARNING", "buildurl": "https://github.com/r-universe/bioc/actions/runs/38878332248" }, { "r": "4.6.0", "os": "wasm", "version": "1.29.0", "date": "2026-10-16T09:15:26.000Z", "commit": "baa39d77a1aff453b2120af9c484aacde76b9d06", "fileid": "https://r2.ropensci.org/60787fdbe02afe2e707ff41302cdc0e5193cd978c0ac543e7529f8a02bcbcbd5", "status": "success", "buildurl": "https://github.com/r-universe/bioc/actions/runs/38878332248" }, { "r": "4.7.0", "os": "win", "version": "1.29.0", "date": "2026-10-16T09:14:30.000Z", "commit": "baa39d77a1aff453b2120af9c484aacde76b9d06", "fileid": "https://r2.ropensci.org/1020c8f03140c478e5bef1b2230f4ac83c8bcd0ce8f6b08517e4a4cc8a6a337b", "status": "success", "check": "WARNING", "buildurl": "https://github.com/r-universe/bioc/actions/runs/38878332248" }, { "r": "4.5.3", "os": "win", "version": "1.29.0", "date": "2026-10-16T09:14:21.000Z", "commit": "baa39d77a1aff453b2120af9c484aacde76b9d06", "fileid": "https://r2.ropensci.org/8ba9a79bc696b3339dfcd7bba8acdff769df9ea5ecc9e52cd261111f6d902ea1", "status": "success", "check": "WARNING", "buildurl": "https://github.com/r-universe/bioc/actions/runs/38878332248" }, { "r": "4.6.1", "os": "win", "version": "1.29.0", "date": "2026-10-16T09:14:22.000Z", "commit": "baa39d77a1aff453b2120af9c484aacde76b9d06", "fileid": "https://r2.ropensci.org/c81c9e0824bb1ddb283409154ec08e0d92392c051a936fbb63827f0ff3617b42", "status": "success", "check": "WARNING", "buildurl": "https://github.com/r-universe/bioc/actions/runs/38878332248" } ] }