{ "_id": "6ac65f9cca1b382b34ef3c3f", "Package": "growkar", "Title": "SummarizedExperiment Infrastructure for Microbial Growth\nPhenotyping", "Version": "0.99.4", "Authors@R": "person(\"Pooja\", \"Sethiya\",\nemail = \"poojasethiya24@gmail.com\",\nrole = c(\"aut\", \"cre\"),\ncomment = c(ORCID = \"0000-0001-6584-3912\"))", "Description": "growkar provides Bioconductor-native infrastructure for\nhigh-throughput microbial growth phenotyping from plate-based\nassays such as optical density (OD) measurements. The package\nis built around SummarizedExperiment as its canonical data\nmodel, with OD measurements in assays, timepoint annotations in\nrowData, sample annotations in colData, and derived phenotypes\nin metadata. growkar supports data import, quality control,\nnormalization, empirical growth-rate estimation,\nexponential-phase detection, and parametric modeling of growth\ndynamics. These workflows enable extraction of biologically\nmeaningful phenotypes including lag time, growth rate, doubling\ntime, and carrying capacity, and allow growth-derived\nphenotypes to be integrated with other Bioconductor analyses in\nmicrobial systems biology and multi-omics studies. The\ndata-structure and analysis layers depend only on core\nBioconductor infrastructure; graphing is optional and provided\nby 'plot_*' functions that are enabled when the suggested\ngraphics package is installed.", "License": "MIT + file LICENSE", "Encoding": "UTF-8", "Roxygen": "list(markdown = TRUE)", "VignetteBuilder": "knitr", "Config/testthat/edition": "3", "URL": "https://github.com/sethiyap/growkar", "BugReports": "https://github.com/sethiyap/growkar/issues", "biocViews": "Software, SystemsBiology, ExperimentalDesign, Visualization,\nInfrastructure, DataImport, QualityControl, Normalization", "Config/roxygen2/version": "8.0.0", "Config/pak/sysreqs": "cmake make libicu-dev libuv1-dev libssl-dev\nzlib1g-dev", "Repository": "https://bioc.r-universe.dev", "Date/Publication": "2026-09-07 01:46:56 UTC", "RemoteUrl": "https://github.com/bioc/growkar", "RemoteRef": "HEAD", "RemoteSha": "6c1fa596975dd272f5d593c6c235f8fc6ded4348", "NeedsCompilation": "no", "Packaged": { "Date": "2026-10-07 13:22:00 UTC", "User": "root" }, "Author": "Pooja Sethiya [aut, cre] (ORCID:\n)", "Maintainer": "Pooja Sethiya ", "_user": "bioc", "_type": "src", "_file": "growkar_0.99.4.tar.gz", "_fileid": "https://r2.ropensci.org/4c79fd507d8c196b0d7b6b7f68ec6b0946f46891a0a0380e57f4c2c0142504d8", "_filesize": 2653736, "_sha256": "4c79fd507d8c196b0d7b6b7f68ec6b0946f46891a0a0380e57f4c2c0142504d8", "_expires": "2027-01-15T15:04:57.000Z", "_created": "2026-10-07T13:22:00.000Z", "_published": "2026-10-07T15:05:00.321Z", "_buildurl": "https://github.com/r-universe/bioc/actions/runs/37627300822", "_status": "success", "_host": "GitHub-Actions", "_bioccheck": { "error": 0, "warning": 0, "note": 3 }, "_upstream": "https://github.com/bioc/growkar", "_commit": { "id": "6c1fa596975dd272f5d593c6c235f8fc6ded4348", "author": "Pooja Sethiya ", "committer": "Pooja Sethiya ", "message": "Fix vignette chunk guards that fail when the vignette is tangled\n\nR CMD build weaves and tangles each vignette. Tangling does not evaluate\nchunk code, so `eval = has_graphics`, whose flag was assigned in the setup\nchunk, could not be resolved and the build reported\n\n Error in eval(x, envir = envir) : object 'has_graphics' not found\n\nonce per guarded chunk. Write the ggplot2 availability check inline in the\nchunk options instead, so it resolves in both the woven and the tangled\npass, and drop the now unused flag from the setup chunk.\n\nBump to 0.99.4 so the change propagates on the Bioconductor build system.\n", "time": 1788745616 }, "_maintainer": { "name": "Pooja Sethiya", "email": "poojasethiya24@gmail.com", "login": "sethiyap", "linkedin": "in/pooja-sethiya-9b969b23", "description": "Bioinformatician, Post-doctoral research Scientist", "uuid": 22817107, "orcid": "0000-0001-6584-3912" }, "_distro": "resolute", "_jobs": [ { "job": 112814840294, "time": 163, "config": "bioc-checks", "r": "4.6.1", "check": "NOTE", "artifact": "11485506276" }, { "job": 112814840279, "time": 389, "config": "linux-devel-x86_64", "r": "4.7.0", "check": "OK", "artifact": "11485946002" }, { "job": 112814840427, "time": 350, "config": "linux-release-x86_64", "r": "4.6.1", "check": "OK", "artifact": "11485701528" }, { "job": 112814840444, "time": 198, 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