{ "_id": "6a1d281b1d7bb097a0a383b5", "Package": "ggvariant", "Title": "Tidy, ggplot2-Native Visualization for Genomic Variants", "Version": "0.1.0", "Authors@R": "person(\"Joash Joshua\", \"Ayo\", email = \"joashjoshua789@gmail.com\", role = c(\"aut\", \"cre\"),\ncomment = c(ORCID = \"0009-0007-1642-0172\"))", "Description": "A simple, opinionated toolkit for visualizing genomic\nvariant data using a ggplot2-native grammar. Accepts VCF files\nor plain data frames and produces publication-ready lollipop\nplots, consequence summaries, mutational spectrum charts, and\ncohort-level comparisons with minimal code. Designed for both\nwet-lab biologists and experienced bioinformaticians.", "License": "MIT + file LICENSE", "Encoding": "UTF-8", "Roxygen": "list(markdown = TRUE)", "RoxygenNote": "7.3.3", "Config/testthat/edition": "3", "URL": "https://github.com/josh45-source/ggvariant", "BugReports": "https://github.com/josh45-source/ggvariant/issues", "VignetteBuilder": "knitr", "Repository": "https://josh45-source.r-universe.dev", "Date/Publication": "2026-03-02 08:03:41 UTC", "RemoteUrl": "https://github.com/josh45-source/ggvariant", "RemoteRef": "HEAD", "RemoteSha": "70eeeb4a96583804de9503226ac76d06b8fcce55", "NeedsCompilation": "no", "Packaged": { "Date": "2026-05-31 07:36:00 UTC", "User": "root" }, "Author": "Joash Joshua Ayo [aut, cre] (ORCID:\n)", "Maintainer": "Joash Joshua Ayo ", "MD5sum": "6f6179924c673a7f921e44e890033c13", "_user": "josh45-source", "_type": "src", "_file": "ggvariant_0.1.0.tar.gz", "_fileid": "1553cbadcffbaa3c897a8d4a2b2edb6da12a839e7cde518cba7e812fafc58794", "_filesize": 537086, "_sha256": "1553cbadcffbaa3c897a8d4a2b2edb6da12a839e7cde518cba7e812fafc58794", "_created": "2026-05-31T07:36:00.000Z", "_published": "2026-06-01T06:35:07.938Z", "_distro": "noble", "_jobs": [ { "job": 78798405622, "time": 146, "config": "linux-devel-x86_64", "r": "4.7.0", "check": "OK", "artifact": "7314890040" }, { "job": 78798405667, "time": 158, "config": "linux-release-x86_64", "r": "4.6.0", "check": "OK", "artifact": "7314891473" }, { "job": 78798405615, "time": 142, "config": "macos-oldrel-arm64", "r": "4.5.3", "check": "OK", "artifact": "7315042524" }, { "job": 78798405256, "time": 190, "config": "macos-release-arm64", "r": "4.6.0", "check": "OK", "artifact": "7324817565" }, { "job": 78798405343, "time": 189, "config": "source", "r": "4.6.0", "check": "OK", "artifact": "7314872088" }, { "job": 78798405397, "time": 114, "config": "wasm-release", "r": "4.6.0", "check": "OK", "artifact": "7314886216" }, { "job": 78798405684, "time": 98, "config": "windows-devel", "r": "4.7.0", "check": "OK", "artifact": "7314884280" }, { "job": 78798405636, "time": 94, "config": "windows-oldrel", "r": "4.5.3", "check": "OK", "artifact": "7314883924" }, { "job": 78798405568, "time": 90, "config": "windows-release", "r": "4.6.0", "check": "OK", "artifact": "7314883459" } ], "_buildurl": "https://github.com/r-universe/josh45-source/actions/runs/26706608320", "_status": "success", "_host": "GitHub-Actions", "_upstream": "https://github.com/josh45-source/ggvariant", "_commit": { "id": "70eeeb4a96583804de9503226ac76d06b8fcce55", "author": "Joash Ayo ", "committer": "GitHub ", "message": "Add citation section to README\n\nAdded citation information for ggvariant package.", "time": 1772438621 }, "_maintainer": { "name": "Joash Joshua Ayo", "email": "joashjoshua789@gmail.com", "login": "josh45-source", "uuid": 205327854 }, "_registered": true, "_dependencies": [ { "package": "R", "version": ">= 4.1.0", "role": "Depends" }, { "package": "ggplot2", "version": ">= 3.4.0", "role": "Imports" }, { "package": "cli", "version": ">= 3.6.0", "role": "Imports" }, { "package": "scales", "version": ">= 1.3.0", "role": "Imports" }, { "package": "plotly", "version": ">= 4.10.0", "role": "Suggests" }, { "package": "testthat", "version": ">= 3.0.0", "role": "Suggests" }, { "package": "covr", "role": "Suggests" }, { "package": "knitr", "role": "Suggests" }, { "package": "rmarkdown", "role": "Suggests" } ], "_owner": "josh45-source", "_selfowned": true, "_usedby": 0, "_updates": [ { "week": "2026-08", "n": 6 }, { "week": "2026-10", "n": 1 } ], "_tags": [], "_stars": 10, "_contributors": [ { "user": "josh45-source", "count": 1, "uuid": 205327854 } ], "_userbio": { "uuid": 205327854, "type": "user", "name": "Joash Joshua Ayo", "description": "Bioinformatics Enthusiast " }, "_downloads": { "count": 131, "source": "https://cranlogs.r-pkg.org/downloads/total/last-month/ggvariant" }, "_devurl": "https://github.com/josh45-source/ggvariant", "_searchresults": 0, "_rbuild": "4.6.0", "_assets": [ "extra/citation.cff", "extra/citation.html", "extra/citation.json", "extra/citation.txt", "extra/contents.json", "extra/ggvariant.html", "extra/readme.html", "extra/readme.md", "manual.pdf" ], "_homeurl": "https://github.com/josh45-source/ggvariant", "_realowner": "josh45-source", "_cranurl": true, "_releases": [ { "version": "0.1.0", "date": "2026-02-27" } ], "_exports": [ "coerce_variants", "gv_palette", "plot_consequence_summary", "plot_lollipop", "plot_variant_spectrum", "read_vcf", "theme_ggvariant" ], "_help": [ { "page": "ggvariant-package", "title": "ggvariant: Tidy, ggplot2-Native Visualization for Genomic Variants", "topics": [ "ggvariant-package", "ggvariant" ] }, { "page": "coerce_variants", "title": "Coerce a plain data frame to a 'gvf' object", "topics": [ "coerce_variants" ] }, { "page": "gv_palette", "title": "ggvariant colour palettes", "topics": [ "gv_palette" ] }, { "page": "plot_consequence_summary", "title": "Consequence summary bar chart", "topics": [ "plot_consequence_summary" ] }, { "page": "plot_lollipop", "title": "Lollipop plot of variants along a gene", "topics": [ "plot_lollipop" ] }, { "page": "plot_variant_spectrum", "title": "Mutational spectrum (SBS) bar chart", "topics": [ "plot_variant_spectrum" ] }, { "page": "read_vcf", "title": "Read a VCF file into a tidy variant data frame", "topics": [ "read_vcf" ] }, { "page": "theme_ggvariant", "title": "ggvariant ggplot2 theme", "topics": [ "theme_ggvariant" ] } ], "_readme": "https://github.com/josh45-source/ggvariant/raw/HEAD/README.md", "_rundeps": [ "cli", "cpp11", "farver", "ggplot2", "glue", "gtable", "isoband", "labeling", "lifecycle", "R6", "RColorBrewer", "rlang", "S7", "scales", "vctrs", "viridisLite", "withr" ], "_vignettes": [ { "source": "introduction-to-ggvariant.Rmd", "filename": "introduction-to-ggvariant.html", "title": "Introduction to ggvariant", "engine": "knitr::rmarkdown", "headings": [ "Overview", "Installation", "Loading variant data", "Option 1: From a VCF file", "Option 2: From a data frame or Excel export", "Lollipop plot", "Adding protein domain annotations", "Colouring by sample", "Customising further", "Consequence summary", "By sample", "Proportional view", "By gene", "Mutational spectrum", "Faceted by sample", "Interactive plots", "Colour palettes and theming", "Access the built-in palettes", "Apply the theme to your own plots", "Summary", "Session information" ], "created": "2026-02-22 20:15:56", "modified": "2026-02-22 20:15:56", "commits": 1 } ], "_score": 5, "_indexed": true, "_nocasepkg": "ggvariant", "_universes": [ "josh45-source" ], "_binaries": [ { "r": "4.7.0", "os": "linux", "version": "0.1.0", "date": "2026-05-31T07:38:11.000Z", "distro": "noble", "commit": "70eeeb4a96583804de9503226ac76d06b8fcce55", "fileid": "7df04aab0a391d5fc66fcd08de74846ed329db4c4cb2dab763b57959ee896b88", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/josh45-source/actions/runs/26706608320" }, { "r": "4.6.0", "os": "linux", "version": "0.1.0", "date": "2026-05-31T07:38:17.000Z", "distro": "noble", "commit": "70eeeb4a96583804de9503226ac76d06b8fcce55", "fileid": "0259402dc30aadba84970b0ca6a10bd9bbaeb5aa0072381bb8f85042649cb1f8", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/josh45-source/actions/runs/26706608320" }, { "r": "4.5.3", "os": "mac", "version": "0.1.0", "date": "2026-05-31T08:01:36.000Z", "commit": "70eeeb4a96583804de9503226ac76d06b8fcce55", "fileid": "aeac551619d0f38b8466d1bbfd385cd02f66b5eaee9f5ea065a5033a401e6ede", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/josh45-source/actions/runs/26706608320" }, { "r": "4.6.0", "os": "mac", "version": "0.1.0", "date": "2026-06-01T06:33:43.000Z", "commit": "70eeeb4a96583804de9503226ac76d06b8fcce55", "fileid": "45e0cef93bced8c51448477a768e972ff79f7b59531f57d7b25c998e93e05389", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/josh45-source/actions/runs/26706608320" }, { "r": "4.6.0", "os": "wasm", "version": "0.1.0", "date": "2026-05-31T07:38:09.000Z", "commit": "70eeeb4a96583804de9503226ac76d06b8fcce55", "fileid": "55885aa62aa8a902c26a93fac451a6ae18024b07a7311c89a7e091dbc872f16e", "status": "success", "buildurl": "https://github.com/r-universe/josh45-source/actions/runs/26706608320" }, { "r": "4.7.0", "os": "win", "version": "0.1.0", "date": "2026-05-31T07:37:19.000Z", "commit": "70eeeb4a96583804de9503226ac76d06b8fcce55", "fileid": "c450c2132c468304d8c2008bdf5977fbb14958d1c09b44fd3b180a6574eb469d", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/josh45-source/actions/runs/26706608320" }, { "r": "4.5.3", "os": "win", "version": "0.1.0", "date": "2026-05-31T07:37:13.000Z", "commit": "70eeeb4a96583804de9503226ac76d06b8fcce55", "fileid": "ac3dc65d0b95b84a3e2ffa0115047ad4e65a2cd74f31c5245c084b92cc456080", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/josh45-source/actions/runs/26706608320" }, { "r": "4.6.0", "os": "win", "version": "0.1.0", "date": "2026-05-31T07:37:09.000Z", "commit": "70eeeb4a96583804de9503226ac76d06b8fcce55", "fileid": "cb6d3cb583dacec3be39111cd5df42f6748bd9652ea4f9703b24a37691e5e3ef", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/josh45-source/actions/runs/26706608320" } ] }