Facilitate Analysis of Proteomic Data from Olink


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Documentation for package ‘OlinkAnalyze’ version 3.0.0

Help Pages

manifest Example Sample Manifest
npx_data1 NPX Data in Long format
npx_data2 NPX Data in Long format, Follow-up
olink_anova Function which performs an ANOVA per protein
olink_anova_posthoc Function which performs an ANOVA posthoc test per protein.
olink_boxplot Function which plots boxplots of selected variables
olink_bridgeselector Bridge selection function
olink_color_discrete Olink color scale for discrete ggplots
olink_color_gradient Olink color scale for continuous ggplots
olink_displayPlateDistributions Plot distributions of a given variable for all plates
olink_displayPlateLayout Plot all plates colored by a variable
olink_dist_plot Function to plot the NPX distribution by panel
olink_fill_discrete Olink fill scale for discrete ggplots
olink_fill_gradient Olink fill scale for continuous ggplots
olink_lmer Function which performs a linear mixed model per protein
olink_lmer_plot Function which performs a point-range plot per protein on a linear mixed model
olink_lmer_posthoc Function which performs a linear mixed model posthoc per protein.
olink_normalization Normalization of all proteins (by OlinkID).
olink_pal Olink color panel for plotting
olink_pca_plot Function to plot a PCA of the data
olink_plate_randomizer Randomly assign samples to plates
olink_qc_plot Function to plot an overview of a sample cohort per Panel
olink_ttest Function which performs a t-test per protein
olink_volcano_plot Easy volcano plot with Olink theme
read_NPX Function to read NPX data into long format
set_plot_theme Function to set plot theme