Type: Package
Package: OlinkAnalyze
Title: Facilitate Analysis of Proteomic Data from Olink
Version: 5.0.0
Authors@R: c(
    person("Kathleen", "Nevola", , "biostattools@olink.com", role = c("aut", "cre"),
           comment = c(ORCID = "0000-0002-5183-6444", "kathy-nevola")),
    person("Marianne", "Sandin", role = "aut",
           comment = c(ORCID = "0000-0001-6186-963X", "marisand")),
    person("Jamey", "Guess", role = "aut",
           comment = c(ORCID = "0000-0002-4017-0923", "jrguess")),
    person("Simon", "Forsberg", role = "aut",
           comment = c(ORCID = "0000-0002-7451-9222", "simfor")),
    person("Christoffer", "Cambronero", role = "aut",
           comment = c("Orbmac")),
    person("Pascal", "Pucholt", role = "aut",
           comment = c(ORCID = "0000-0003-3342-1373", "AskPascal")),
    person("Boxi", "Zhang", role = "aut",
           comment = c(ORCID = "0000-0001-7758-6204", "boxizhang")),
    person("Masoumeh", "Sheikhi", role = "aut",
           comment = c("MasoumehSheikhi")),
    person("Klev", "Diamanti", role = "aut",
           comment = c(ORCID = "0000-0002-4922-8415", "klevdiamanti")),
    person("Amrita", "Kar", role = "aut",
           comment = c("amrita-kar")),
    person("Lei", "Conze", role = "aut", 
            comment = c("leiliuC")),
    person("Kristyn", "Chin", role = "aut",
            comment = c("kristynchin-olink")),
    person("Danai", "Topouza", role = "aut",
            comment = c("dtopouza", ORCID = "0000-0002-6897-9281")),
    person("Stephen", "Pollo", role = "aut",
            comment = c("spollo-olprot", ORCID = "0000-0001-9252-4976")),
    person("Kang", "Dong", role = "aut",
            comment = c("KangD-dev", ORCID = "0000-0002-4567-5007")),
    person("Kristian", "Hodén", role = "ctb",
           comment = c(ORCID = "0000-0003-0354-0662", "kristianHoden")),
    person("Per", "Eriksson", role = "ctb",
           comment = c(ORCID = "0000-0001-7633-403X", "b_watcher")),
    person("Nicola", "Moloney", role = "ctb",
            comment = c(ORCID = "0000-0003-4967-3284")),
    person("Britta", "Lötstedt", role = "ctb",
            comment = c(ORCID = "0000-0003-3545-5489")),
    person("Emmett", "Sprecher", role = "ctb",
           comment = c(ORCID = "0000-0002-7710-695X")),
    person("Jessica", "Barbagallo", role = "ctb",
           comment = c("jbarbagallo")),
    person("Olof", "Mansson", role = "ctr",
           comment = c("olofmansson")),
    person("Ola", "Caster", role = "ctb",
           comment = c("OlaCaster")),
    person("Olink", role = c("cph", "fnd"))
  )
Description: A collection of functions to facilitate analysis of proteomic
    data from Olink, primarily NPX data that has been exported from Olink
    Software. The functions also work on QUANT data from
    Olink by log- transforming the QUANT data. The functions are focused
    on reading data, facilitating data wrangling and quality control
    analysis, performing statistical analysis and generating figures to
    visualize the results of the statistical analysis. The goal of this
    package is to help users extract biological insights from proteomic
    data run on the Olink platform.
License: AGPL (>= 3)
Contact: biostattools@olink.com
URL: https://olink.com/
        https://github.com/Olink-Proteomics/OlinkRPackage
Config/testthat/edition: 3
Config/testthat/parallel: true
Config/testthat/start-first: read_npx_l*, read_npx_w*
Encoding: UTF-8
LazyData: true
RoxygenNote: 7.3.3
Depends: R (>= 4.1.0)
Imports: arrow (>= 14.0.0), cli (>= 3.6.2), data.table, dbplyr, dplyr
        (>= 1.2.0), duckdb, forcats, ggplot2, grDevices, rlang,
        stringr, tibble, tidyr
Suggests: broom, car, clusterProfiler, curl, emmeans, ggplotify,
        ggpubr, ggrepel, lme4, lmerTest, msigdbr (> 24.1.0), ordinal,
        readxl, pheatmap, scales, showtext, sysfonts, systemfonts,
        testthat (>= 3.0.0), vdiffr, withr, writexl, zip, umap,
        rstatix, FSA, kableExtra, knitr
VignetteBuilder: knitr
NeedsCompilation: no
Packaged: 2026-03-28 11:26:48 UTC; klev.diamanti
Author: Kathleen Nevola [aut, cre] (ORCID:
    <https://orcid.org/0000-0002-5183-6444>, kathy-nevola),
  Marianne Sandin [aut] (ORCID: <https://orcid.org/0000-0001-6186-963X>,
    marisand),
  Jamey Guess [aut] (ORCID: <https://orcid.org/0000-0002-4017-0923>,
    jrguess),
  Simon Forsberg [aut] (ORCID: <https://orcid.org/0000-0002-7451-9222>,
    simfor),
  Christoffer Cambronero [aut] (Orbmac),
  Pascal Pucholt [aut] (ORCID: <https://orcid.org/0000-0003-3342-1373>,
    AskPascal),
  Boxi Zhang [aut] (ORCID: <https://orcid.org/0000-0001-7758-6204>,
    boxizhang),
  Masoumeh Sheikhi [aut] (MasoumehSheikhi),
  Klev Diamanti [aut] (ORCID: <https://orcid.org/0000-0002-4922-8415>,
    klevdiamanti),
  Amrita Kar [aut] (amrita-kar),
  Lei Conze [aut] (leiliuC),
  Kristyn Chin [aut] (kristynchin-olink),
  Danai Topouza [aut] (dtopouza, ORCID:
    <https://orcid.org/0000-0002-6897-9281>),
  Stephen Pollo [aut] (spollo-olprot, ORCID:
    <https://orcid.org/0000-0001-9252-4976>),
  Kang Dong [aut] (KangD-dev, ORCID:
    <https://orcid.org/0000-0002-4567-5007>),
  Kristian Hodén [ctb] (ORCID: <https://orcid.org/0000-0003-0354-0662>,
    kristianHoden),
  Per Eriksson [ctb] (ORCID: <https://orcid.org/0000-0001-7633-403X>,
    b_watcher),
  Nicola Moloney [ctb] (ORCID: <https://orcid.org/0000-0003-4967-3284>),
  Britta Lötstedt [ctb] (ORCID: <https://orcid.org/0000-0003-3545-5489>),
  Emmett Sprecher [ctb] (ORCID: <https://orcid.org/0000-0002-7710-695X>),
  Jessica Barbagallo [ctb] (jbarbagallo),
  Olof Mansson [ctr] (olofmansson),
  Ola Caster [ctb] (OlaCaster),
  Olink [cph, fnd]
Maintainer: Kathleen Nevola <biostattools@olink.com>
Repository: CRAN
Date/Publication: 2026-03-28 12:00:02 UTC
Built: R 4.6.0; ; 2026-05-04 03:44:32 UTC; windows
