{ "_id": "6a102456acfb0bcc41c8db91", "Package": "DRomics", "Title": "Dose Response for Omics", "Version": "2.6.3", "Authors@R": "c(person(\"Marie-Laure\", \"Delignette-Muller\", role = \"aut\", email = \"marielaure.delignettemuller@vetagro-sup.fr\", comment = c(ORCID = \"0000-0001-5453-3994\")),\nperson(\"Elise\", \"Billoir\", role = \"aut\", email = \"elise.billoir@univ-lorraine.fr\", comment = c(ORCID = \"0000-0001-9012-3298\")),\nperson(\"Floriane\", \"Larras\", role = \"ctb\", email = \"floriane.larras@kreatis.eu\"),\nperson(\"Aurelie\", \"Siberchicot\", role = c(\"aut\", \"cre\"), email = \"aurelie.siberchicot@univ-lyon1.fr\", comment = c(ORCID = \"0000-0002-7638-8318\")))", "Description": "Several functions are provided for dose-response (or\nconcentration-response) characterization from omics data.\n'DRomics' is especially dedicated to omics data obtained using\na typical dose-response design, favoring a great number of\ntested doses (or concentrations) rather than a great number of\nreplicates (no need of replicates). 'DRomics' provides\nfunctions 1) to check, normalize and or transform data, 2) to\nselect monotonic or biphasic significantly responding items\n(e.g. probes, metabolites), 3) to choose the best-fit model\namong a predefined family of monotonic and biphasic models to\ndescribe each selected item, 4) to derive a benchmark dose or\nconcentration and a typology of response from each fitted\ncurve. In the available version data are supposed to be\nsingle-channel microarray data in log2, RNAseq data in raw\ncounts, or already pretreated continuous omics data (such as\nmetabolomic data) in log scale. In order to link responses\nacross biological levels based on a common method, 'DRomics'\nalso handles apical data as long as they are continuous and\nfollow a normal distribution for each dose or concentration,\nwith a common standard error. For further details see\nDelignette-Muller et al (2023) and\nLarras et al (2018) .", "License": "GPL (>= 2)", "VignetteBuilder": "knitr", "BuildVignettes": "true", "Encoding": "UTF-8", "URL": "https://drgarden.pages.in2p3.fr/DRomics/,\nhttps://lbbe.univ-lyon1.fr/fr/dromics", "Contact": "Marie-Laure Delignette-Muller\n", "Config/pak/sysreqs": "libicu-dev zlib1g-dev", "Repository": "https://lbbe-software.r-universe.dev", "Date/Publication": "2026-05-13 09:37:37 UTC", "RemoteUrl": "https://github.com/lbbe-software/dromics", "RemoteRef": "HEAD", "RemoteSha": "bb2fd35435b1601db2455bd9aebe641e1c0a6440", "NeedsCompilation": "no", "Packaged": { "Date": "2026-05-13 10:01:03 UTC", "User": "root" }, "Author": "Marie-Laure Delignette-Muller [aut] (ORCID:\n),\nElise Billoir [aut] (ORCID: ),\nFloriane Larras [ctb],\nAurelie Siberchicot [aut, cre] (ORCID:\n)", "Maintainer": "Aurelie Siberchicot ", "MD5sum": "b52f6363de680e6fd65481863dd835f5", "_user": "lbbe-software", "_type": "src", "_file": 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group", "BMD ECDF plots split by group defined from biological annotation", "Sensitivity plot of biological groups", "Trend plot per biological group", "Plot of dose-response curves per biological group", "Comparison of DRomics results obtained at different experimental levels, for example in a multi-omics approach", "Augmentation of the data frames of DRomics results with biological annotation", "Binding of the data frames corresponding the results at each experimental level", "Comparison of results obtained at the different experimental levels using basic R functions", "Comparison of results obtained at the different experimental levels using DRomics functions", "ECDF plot of BMD values per group and experimental level using DRomics functions", "Plot of the trend repartition per group and experimental level", "Sensitivity plot per group and experimental level", "Selection of groups on which to focus using the selectgroups() function", "BMD ECDF plot with color gradient split by group 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