OlinkAnalyze: Facilitate Analysis of Proteomic Data from Olink
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.
| Version: | 3.5.1 |
| Depends: | R (≥ 4.1.0) |
| Imports: | broom, car, dplyr, emmeans, forcats, generics, ggplot2, ggpubr, ggrepel, grDevices, grid, lme4, lmerTest, magrittr, methods, readxl, rlang, rstatix, stats, stringr, tibble, tidyr, tidyselect, tools, utils, zip |
| Suggests: | arrow, clusterProfiler, extrafont, FSA, ggplotify, here, kableExtra, knitr, markdown, msigdbr, openssl, ordinal, pheatmap, rmarkdown, scales, systemfonts, testthat (≥ 3.0.0), umap, vdiffr |
| Published: | 2023-08-08 |
| Author: | Kathleen Nevola 
[aut, cre] (kathy-nevola),
Marianne Sandin
[aut] (marisand),
Jamey Guess [aut]
(jrguess),
Simon Forsberg
[aut] (simfor),
Christoffer Cambronero [aut] (Orbmac),
Pascal Pucholt
[aut] (AskPascal),
Boxi Zhang [aut]
(boxizhang),
Masoumeh Sheikhi [aut] (MasoumehSheikhi),
Klev Diamanti
[aut] (klevdiamanti),
Amrita Kar [aut] (amrita-kar),
Lei Conze [aut] (leiliuC),
Kristian Hodén
[ctb] (kristianHoden),
Per Eriksson
[ctb] (b_watcher),
Nicola Moloney
[ctb],
Britta Lötstedt
[ctb],
Emmett Sprecher
[ctb],
Jessica Barbagallo [ctb] (jbarbagallo),
Olof Mansson [ctr] (olofmansson),
Ola Caster [ctb] (OlaCaster),
Olink [cph, fnd] |
| Maintainer: | Kathleen Nevola <biostattools at olink.com> |
| License: | AGPL (≥ 3) |
| NeedsCompilation: | no |
| Materials: | NEWS |
| CRAN checks: | OlinkAnalyze results |
Documentation:
| Reference manual: | OlinkAnalyze.pdf |
| Vignettes: |
Outlier Exclusion Vignette Olink® Analyze Vignette Introduction to bridging Olink® NPX datasets Plate Randomization Vignette |
Downloads:
| Package source: | OlinkAnalyze_3.5.1.tar.gz |
| Windows binaries: | r-devel: OlinkAnalyze_3.5.1.zip, r-release: OlinkAnalyze_3.5.1.zip, r-oldrel: OlinkAnalyze_3.5.1.zip |
| macOS binaries: | r-release (arm64): OlinkAnalyze_3.5.1.tgz, r-oldrel (arm64): OlinkAnalyze_3.5.1.tgz, r-release (x86_64): OlinkAnalyze_3.5.1.tgz, r-oldrel (x86_64): OlinkAnalyze_3.5.1.tgz |
| Old sources: | OlinkAnalyze archive |
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