{ "_id": "6a17e3dbacfb0bcc41da061e", "Package": "CytoPipeline", "Title": "Automation and visualization of flow cytometry data analysis\npipelines", "Version": "1.13.0", "Authors@R": "c(person(given = \"Philippe\",\nfamily = \"Hauchamps\",\nrole = c(\"aut\", \"cre\"),\nemail = \"philippe.hauchamps@uclouvain.be\",\ncomment = c(ORCID = \"0000-0003-2865-1852\")),\nperson(given = \"Laurent\", family = \"Gatto\",\nemail = \"laurent.gatto@uclouvain.be\",\nrole = \"aut\",\ncomment = c(ORCID = \"0000-0002-1520-2268\")),\nperson(given = \"Dan\",\nfamily = \"Lin\",\nrole = \"ctb\",\nemail = \"dan.8.lin@gsk.com\"))", "Description": "This package provides support for automation and\nvisualization of flow cytometry data analysis pipelines. In the\ncurrent state, the package focuses on the preprocessing and\nquality control part. The framework is based on two main S4\nclasses, i.e. CytoPipeline and CytoProcessingStep. The pipeline\nsteps are linked to corresponding R functions - that are either\nprovided in the CytoPipeline package itself, or exported from a\nthird party package, or coded by the user her/himself. The\nprocessing steps need to be specified centrally and explicitly\nusing either a json input file or through step by step creation\nof a CytoPipeline object with dedicated methods. After having\nrun the pipeline, obtained results at all steps can be\nretrieved and visualized thanks to file caching (the running\nfacility uses a BiocFileCache implementation). The package\nprovides also specific visualization tools like pipeline\nworkflow summary display, and 1D/2D comparison plots of\nobtained flowFrames at various steps of the pipeline.", "License": "GPL-3", "Encoding": "UTF-8", "Roxygen": "list(markdown = TRUE)", "RoxygenNote": "7.3.3", "BugReports": "https://github.com/UCLouvain-CBIO/CytoPipeline/issues", "URL": "https://uclouvain-cbio.github.io/CytoPipeline", "biocViews": "FlowCytometry, Preprocessing, QualityControl, WorkflowStep,\nImmunoOncology, Software, Visualization", "Collate": "'CytoPipeline-functions.R' 'CytoPipeline-package.R'\n'CytoPipelineClass.R' 'CytoProcessingStep.R'\n'CytoProcessingStepImplementations.R' 'data.R' 'gating.R'\n'utils.R' 'ggplots.R'", "VignetteBuilder": "knitr", "Config/testthat/edition": "3", "Config/pak/sysreqs": "cmake make libicu-dev libpng-dev libuv1-dev\nlibxml2-dev libssl-dev perl zlib1g-dev", "Repository": "https://bioc.r-universe.dev", "Date/Publication": "2026-04-28 12:59:41 UTC", "RemoteUrl": "https://github.com/bioc/CytoPipeline", "RemoteRef": "HEAD", "RemoteSha": "723595faed81c2b7c0ffec6655d146f3c79af2df", "NeedsCompilation": "no", "Packaged": { "Date": "2026-05-28 06:32:04 UTC", "User": "root" }, "Author": "Philippe Hauchamps [aut, cre] (ORCID:\n),\nLaurent Gatto [aut] (ORCID: ),\nDan Lin [ctb]", "Maintainer": "Philippe Hauchamps ", "MD5sum": "987d10a6da4fe378cf5d2aa506bf8cdb", "_user": "bioc", "_type": "src", "_file": "CytoPipeline_1.13.0.tar.gz", "_fileid": "4f78b2aeb187f25e4e2e8a68dd6e9df814964f5469159525c65240f67938a74c", "_filesize": 2981619, "_sha256": "4f78b2aeb187f25e4e2e8a68dd6e9df814964f5469159525c65240f67938a74c", "_created": "2026-05-28T06:32:04.000Z", "_published": "2026-05-28T06:42:35.451Z", "_jobs": [ { "job": 78236590012, "time": 192, "config": "bioc-checks", "r": "4.6.0", "check": "NOTE", "artifact": "7259241470" }, { "job": 78236590025, "time": 352, "config": "linux-devel-x86_64", "r": "4.7.0", "check": "WARNING", "artifact": "7259280882" }, { "job": 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