{ "_id": "6a5c62a39baadeef8ab4f4ff", "Type": "Package", "Package": "BioGA", "Title": "Bioinformatics Genetic Algorithm (BioGA)", "Version": "1.7.0", "Authors@R": "person(\"Dany\", \"Mukesha\", , \"danymukesha@gmail.com\",\nrole = c(\"aut\", \"cre\"),\ncomment = c(ORCID = \"0009-0001-9514-751X\"))", "Description": "Genetic algorithm are a class of optimization algorithms\ninspired by the process of natural selection and genetics. This\npackage allows users to analyze and optimize high throughput\ngenomic data using genetic algorithms. The functions provided\nare implemented in C++ for improved speed and efficiency, with\nan easy-to-use interface for use within R.", "License": "MIT + file LICENSE", "URL": "https://danymukesha.github.io/BioGA/", "BugReports": "https://github.com/danymukesha/BioGA/issues", "VignetteBuilder": "knitr", "biocViews": "ExperimentalDesign, Technology", "Encoding": "UTF-8", "Roxygen": "list(markdown = TRUE)", "RoxygenNote": "7.3.1", "Config/testthat/edition": "3", "Config/pak/sysreqs": "cmake make libmagick++-dev gsfonts texlive\nlibuv1-dev libxml2-dev libssl-dev zlib1g-dev", "Repository": "https://bioc.r-universe.dev", "Date/Publication": "2026-04-28 13:03:19 UTC", "RemoteUrl": "https://github.com/bioc/BioGA", "RemoteRef": "HEAD", "RemoteSha": "4a2de1d1e3fc836ed0a40b54363c00d81a9741d9", "NeedsCompilation": "yes", "Packaged": { "Date": "2026-07-19 05:29:55 UTC", "User": "root" }, "Author": "Dany Mukesha [aut, cre] (ORCID:\n)", "Maintainer": "Dany Mukesha ", "_user": "bioc", "_type": "src", "_file": "BioGA_1.7.0.tar.gz", "_fileid": "https://r2.ropensci.org/4e2db162ff667c97b41478b04ba7999292dca811d722da5525befea642eb7e59", "_filesize": 210591, "_sha256": "4e2db162ff667c97b41478b04ba7999292dca811d722da5525befea642eb7e59", "_expires": "2026-10-27T05:37:37.000Z", "_created": "2026-07-19T05:29:55.000Z", "_published": "2026-07-19T05:37:39.439Z", "_bioccheck": { "error": 0, "warning": 1, "note": 2 }, "_host": "GitHub-Actions", "_buildurl": "https://github.com/r-universe/bioc/actions/runs/29674800479", "_status": "success", "_upstream": "https://github.com/bioc/BioGA", "_commit": { "id": "4a2de1d1e3fc836ed0a40b54363c00d81a9741d9", "author": "A Wokaty ", "committer": "A Wokaty ", "message": "bump x.y.z version to odd y following creation of RELEASE_3_23 branch\n", "time": 1777381399 }, "_maintainer": { "name": "Dany Mukesha", "email": "danymukesha@gmail.com", "login": "danymukesha", "mastodon": "@dmukesha@mastodon.social", "bluesky": "@duseronx.bsky.social", "orcid": "0009-0001-9514-751X", "twitter": "@duseronx", "description": "", "uuid": 45208254 }, "_distro": "resolute", "_jobs": [ { "job": 88160562303, "time": 234, "config": "bioc-checks", "r": "4.6.1", "check": "WARNING", "artifact": "8438577095" }, { "job": 88160562307, "time": 301, "config": "linux-devel-arm64", "r": "4.7.0", "check": "OK", "artifact": "8438588143" }, { "job": 88160562306, "time": 388, "config": "linux-devel-x86_64", "r": "4.7.0", "check": "OK", "artifact": "8438600602" }, { "job": 88160562312, "time": 317, "config": "linux-release-arm64", "r": "4.6.1", "check": "OK", "artifact": "8438590519" }, { "job": 88160562308, "time": 389, "config": "linux-release-x86_64", "r": "4.6.1", "check": "OK", "artifact": "8438600624" }, { "job": 88160562328, "time": 162, "config": "macos-oldrel-arm64", "r": "4.5.3", "check": "OK", "artifact": "8438565723" }, { "job": 88160562317, "time": 335, "config": "macos-oldrel-x86_64", "r": "4.5.3", "check": "OK", "artifact": "8438592816" }, { "job": 88160562314, "time": 172, "config": "macos-release-arm64", "r": "4.6.1", "check": "OK", "artifact": "8438567118" }, { "job": 88160562315, "time": 291, "config": "macos-release-x86_64", "r": "4.6.1", "check": "OK", "artifact": "8438585860" }, { "job": 88160135082, "time": 344, "config": "source", "r": "4.6.1", "check": "OK", "artifact": "8438539597" }, { "job": 88160562319, "time": 192, "config": "wasm-release", "r": "4.6.0", "check": "OK", "artifact": "8438570316" }, { "job": 88160562309, "time": 258, "config": "windows-devel", "r": "4.7.0", "check": "OK", "artifact": "8438580319" }, { "job": 88160562316, "time": 238, "config": "windows-oldrel", "r": "4.5.3", "check": "OK", "artifact": "8438577574" }, { "job": 88160562320, "time": 287, "config": "windows-release", "r": "4.6.1", "check": "OK", "artifact": "8438585312" } ], "_registered": true, "_dependencies": [ { "package": "R", "version": ">= 4.4", "role": "Depends" }, { "package": "Rcpp", "role": "LinkingTo" }, { "package": "ggplot2", "role": "Imports" }, { "package": "graphics", "role": "Imports" }, { "package": "Rcpp", "role": "Imports" }, { "package": "SummarizedExperiment", "role": "Imports" }, { "package": "animation", "role": "Imports" }, { "package": "rlang", "role": "Imports" }, { "package": "biocViews", "role": "Imports" }, { "package": "sessioninfo", "role": "Imports" }, { "package": "BiocStyle", "role": "Imports" }, { "package": "knitr", "role": "Suggests" }, { "package": "rmarkdown", "role": "Suggests" }, { "package": "testthat", "version": ">= 3.0.0", "role": "Suggests" } ], "_owner": "bioc", "_selfowned": true, "_usedby": 0, "_updates": [ { "week": "2025-44", "n": 2 }, { "week": "2026-18", "n": 2 } ], "_tags": [], "_bioc": [ { "branch": "devel", "version": "1.7.0", "bioc": "3.24" }, { "branch": "release", "version": "1.6.0", "bioc": "3.23" } ], "_topics": [ "experimentaldesign", "technology", "data-analysis", "gene-expression", "genetic-algorithms", "genomics", "optimization-algorithms", "cpp" ], "_stars": 0, "_contributors": [ { "user": "danymukesha", "count": 106, "uuid": 45208254 } ], "_userbio": { "uuid": 2286807, "type": "organization", "name": "Bioconductor", "followers": 449, "description": "Software for the analysis and comprehension of high-throughput genomic data" }, "_downloads": { "count": 216, "source": "https://www.bioconductor.org/packages/stats/bioc/BioGA" }, "_devurl": "https://github.com/danymukesha/bioga", "_pkgdown": "https://danymukesha.github.io/BioGA/", "_searchresults": 13, "_rbuild": "4.6.1", "_assets": [ "extra/BioGA.html", "extra/citation.cff", "extra/citation.html", "extra/citation.json", "extra/citation.txt", "extra/contents.json", "extra/NEWS.html", "extra/NEWS.txt", "extra/readme.html", "extra/readme.md", "LICENSE", "manual.pdf" ], "_homeurl": "https://github.com/danymukesha/bioga", "_realowner": "bioc", "_cranurl": false, "_exports": [ "crossover_cpp", "evaluate_fitness_cpp", "initialize_population_cpp", "mutation_cpp", "plot_fitness", "plot_fitness_history", "plot_population", "replacement_cpp", "selection_cpp" ], "_help": [ { "page": "crossover_cpp", "title": "Function to perform crossover between selected individuals", "topics": [ "crossover_cpp" ] }, { "page": "evaluate_fitness_cpp", "title": "Function to evaluate fitness using genomic data", "topics": [ "evaluate_fitness_cpp" ] }, { "page": "initialize_population_cpp", "title": "Function to initialize the population from genomic data", "topics": [ "initialize_population_cpp" ] }, { "page": "mutation_cpp", "title": "Function to mutate the offspring", "topics": [ "mutation_cpp" ] }, { "page": "plot_fitness", "title": "Plot Fitness Values", "topics": [ "plot_fitness" ] }, { "page": "plot_fitness_history", "title": "Plot Fitness Change Over Generations", "topics": [ "plot_fitness_history" ] }, { "page": "plot_population", "title": "Plot Population Distribution", "topics": [ "plot_population" ] }, { "page": "replacement_cpp", "title": "Function to replace non-selected individuals in the population", "topics": [ "replacement_cpp" ] }, { "page": "selection_cpp", "title": "Function to select individuals based on fitness scores", "topics": [ "selection_cpp" ] } ], "_pkglogo": "https://github.com/bioc/BioGA/raw/HEAD/man/figures/logo.png", "_readme": "https://github.com/bioc/BioGA/raw/HEAD/README.md", "_rundeps": [ "abind", "animation", "base64enc", "BH", "Biobase", "BiocGenerics", "BiocManager", "BiocStyle", "biocViews", "bitops", "bookdown", "bslib", "cachem", "cli", "cpp11", "curl", "DelayedArray", "digest", "evaluate", "farver", "fastmap", "fontawesome", "fs", "generics", "GenomicRanges", "ggplot2", "glue", "graph", "gtable", "highr", "htmltools", "IRanges", "isoband", "jquerylib", "jsonlite", "knitr", "labeling", "lattice", "lifecycle", "magick", "magrittr", "Matrix", "MatrixGenerics", "matrixStats", "memoise", "mime", "R6", "rappdirs", "RBGL", "RColorBrewer", "Rcpp", "RCurl", "rlang", "rmarkdown", "RUnit", "S4Arrays", "S4Vectors", "S7", "sass", "scales", "Seqinfo", "sessioninfo", "SparseArray", "SummarizedExperiment", "tinytex", "vctrs", "viridisLite", "withr", "xfun", "XML", "XVector", "yaml" ], "_sysdeps": [ { "shlib": "libstdc++", "package": "libstdc++6", "source": "gcc", "version": "16-20260322-1ubuntu1", "name": "c++", "homepage": "http://gcc.gnu.org/", "description": "GNU Standard C++ Library v3" } ], "_vignettes": [ { "source": "Introduction.Rmd", "filename": "Introduction.html", "title": "Introduction", "author": "Dany Mukesha", "engine": "knitr::rmarkdown", "headings": [ "Getting Started", "Installation", "Overview", "Example Scenario", "Initialization", "Genetic Algorithm Optimization", "Fitness Calculation" ], "created": "2024-02-26 17:47:21", "modified": "2024-06-04 17:49:43", "commits": 7 } ], "_score": 4.113943352306837, "_indexed": true, "_nocasepkg": "bioga", "_universes": [ "bioc", "danymukesha" ], "_binaries": [ { "r": "4.7.0", "os": "linux", "version": "1.7.0", "date": "2026-07-19T05:33:57.000Z", "distro": "resolute", "arch": "aarch64", "commit": "4a2de1d1e3fc836ed0a40b54363c00d81a9741d9", "fileid": "https://r2.ropensci.org/c4a55ea6c5da3ee0ed3222ae2e1960fbc7f6fbf0e54133158f2708624ca67a6b", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/bioc/actions/runs/29674800479" }, { "r": "4.7.0", "os": "linux", "version": "1.7.0", "date": "2026-07-19T05:34:49.000Z", "distro": "resolute", "arch": "x86_64", "commit": "4a2de1d1e3fc836ed0a40b54363c00d81a9741d9", "fileid": "https://r2.ropensci.org/6e7e8ff567376243adf8d9479a5e53feb86c944fa0139e02b2a928c1663492af", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/bioc/actions/runs/29674800479" }, { "r": "4.6.1", "os": "linux", "version": "1.7.0", "date": "2026-07-19T05:34:02.000Z", "distro": "resolute", "arch": "aarch64", "commit": "4a2de1d1e3fc836ed0a40b54363c00d81a9741d9", "fileid": "https://r2.ropensci.org/eac13ab080fd4ed691ec1b49736606348e605adca6b3ed7d69743c289942a11b", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/bioc/actions/runs/29674800479" }, { "r": "4.6.1", "os": "linux", "version": "1.7.0", "date": "2026-07-19T05:34:38.000Z", "distro": "resolute", "arch": "x86_64", "commit": "4a2de1d1e3fc836ed0a40b54363c00d81a9741d9", "fileid": "https://r2.ropensci.org/72a1d32aa8f1ffde2a2c838e74b2e0b7a275cd7b586a09d6c0017fe58fa3dd2c", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/bioc/actions/runs/29674800479" }, { "r": "4.5.3", "os": "mac", "version": "1.7.0", "date": "2026-07-19T05:31:57.000Z", "arch": "aarch64", "commit": "4a2de1d1e3fc836ed0a40b54363c00d81a9741d9", "fileid": "https://r2.ropensci.org/84211d159431e77c97d16944b23409eae3e7a252f1fdaaa894e9a073b10df57c", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/bioc/actions/runs/29674800479" }, { "r": "4.5.3", "os": "mac", "version": "1.7.0", "date": "2026-07-19T05:33:20.000Z", "arch": "x86_64", "commit": "4a2de1d1e3fc836ed0a40b54363c00d81a9741d9", "fileid": "https://r2.ropensci.org/01fc428665405522c08527bfaf05651aa6aa49c3a7a47646151e325ec0b57177", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/bioc/actions/runs/29674800479" }, { "r": "4.6.1", "os": "mac", "version": "1.7.0", "date": "2026-07-19T05:31:59.000Z", "arch": "aarch64", "commit": "4a2de1d1e3fc836ed0a40b54363c00d81a9741d9", "fileid": "https://r2.ropensci.org/7467d3e81f76acceb1e465655cb2c20cf13c6770d2b98ce654f6ef3462e90e9a", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/bioc/actions/runs/29674800479" }, { "r": "4.6.1", "os": "mac", "version": "1.7.0", "date": "2026-07-19T05:32:44.000Z", "arch": "x86_64", "commit": "4a2de1d1e3fc836ed0a40b54363c00d81a9741d9", "fileid": "https://r2.ropensci.org/7d12a13cad67233f03dc2be24a7aa5cf263dd2b4713cacc74fd0685b96a00cdc", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/bioc/actions/runs/29674800479" }, { "r": "4.6.0", "os": "wasm", "version": "1.7.0", "date": "2026-07-19T05:33:36.000Z", "arch": "emscripten", "commit": "4a2de1d1e3fc836ed0a40b54363c00d81a9741d9", "fileid": "https://r2.ropensci.org/31b60528611d3a53b3f7ac326429c9ed4a992f50f47995557ecc99abbf8104a0", "status": "success", "buildurl": "https://github.com/r-universe/bioc/actions/runs/29674800479" }, { "r": "4.7.0", "os": "win", "version": "1.7.0", "date": "2026-07-19T05:31:59.000Z", "arch": "x86_64", "commit": "4a2de1d1e3fc836ed0a40b54363c00d81a9741d9", "fileid": "https://r2.ropensci.org/ea8d4810e2af5f2bfedf0f805f9792cd5bedde9a25495eb52d2266d31f4e1f02", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/bioc/actions/runs/29674800479" }, { "r": "4.5.3", "os": "win", "version": "1.7.0", "date": "2026-07-19T05:31:54.000Z", "arch": "x86_64", "commit": "4a2de1d1e3fc836ed0a40b54363c00d81a9741d9", "fileid": "https://r2.ropensci.org/b74926fe9f71c1a07897e5874e6f774e7eabf47ec19b0f0938d5d9a3fb8f178b", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/bioc/actions/runs/29674800479" }, { "r": "4.6.1", "os": "win", "version": "1.7.0", "date": "2026-07-19T05:32:14.000Z", "arch": "x86_64", "commit": "4a2de1d1e3fc836ed0a40b54363c00d81a9741d9", "fileid": "https://r2.ropensci.org/6e8799bdf7a5482c0949f539d29f74b1f7a7dd55315fc93fafa39a5acc94b658", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/bioc/actions/runs/29674800479" } ] }