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We provide practical tutorials on data mining, visualization and statistics for decision making.

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# Load required R packages library(ggpubr) library(rstatix) # Data preparation df <- tibble::tribble( ~sample_type, ~expression, ~cancer_type, ~gene, "cancer", 25.8, "Lung", "Gene1", "cancer", 25.5, "Liver", "Gene1", "cancer", 22.4, "Liver", "Gene1", "cancer", 21.2, "Lung", "Gene1", "cancer", 24.5, "Liver", "Gene1", "cancer", 27.3, "Liver", "Gene1", "cancer", 30.9, "Liver",...

11 Apr

GGPUBR: How to Add Adjusted P-values to a Multi-Panel GGPlot

Alboukadel

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# Load required R packages library(ggpubr) library(rstatix) # Data preparation df <- tibble::tribble( ~sample_type, ~expression, ~cancer_type, ~gene, "cancer", 25.8, "Lung", "Gene1", "cancer", 25.5, "Liver", "Gene1", "cancer", 22.4, "Liver", "Gene1", "cancer", 21.2, "Lung", "Gene1", "cancer", 24.5, "Liver", "Gene1", "cancer", 27.3, "Liver", "Gene1", "cancer", 30.9, "Liver",...

This article describes how to publish a reproducible example from R to the datanovia website using the pubr package. The goal of pubr R package is to convert reproducible R scripts and Rmd contents into a publishable HTML block. It makes it easy to...

05 Apr

Publish Reproducible Examples from R to Datanovia Website

Alboukadel

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This article describes how to publish a reproducible example from R to the datanovia website using the pubr package. The goal of pubr R package is to convert reproducible R scripts and Rmd contents into a publishable HTML block. It makes it easy to...

Requirements: dplyr v>=1.0.0 library(dplyr) # Data preparation df <- tibble(w = 0:2, x = 1:3, y = c("a", "b", "c"), z = c("d", "e", "f")) df ## # A tibble: 3 x 4 ## w x y z ## <int> <int> <chr> <chr> ##...

04 Apr

dplyr: How to Change the Order of Columns in Data Frame

Alboukadel

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Requirements: dplyr v>=1.0.0 library(dplyr) # Data preparation df <- tibble(w = 0:2, x = 1:3, y = c("a", "b", "c"), z = c("d", "e", "f")) df ## # A tibble: 3 x 4 ## w x y z ## <int> <int> <chr> <chr> ##...

Requirements: dplyr v>=1.0.0 library(dplyr) # Data preparation df <- as_tibble(iris) df ## # A tibble: 150 x 5 ## Sepal.Length Sepal.Width Petal.Length Petal.Width Species ## <dbl> <dbl> <dbl> <dbl> <fct> ## 1 5.1 3.5 1.4 0.2 setosa ## 2 4.9 3 1.4 0.2 setosa...

04 Apr

dplyr: How to Select a Character Vector of Variable Names

Alboukadel

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Requirements: dplyr v>=1.0.0 library(dplyr) # Data preparation df <- as_tibble(iris) df ## # A tibble: 150 x 5 ## Sepal.Length Sepal.Width Petal.Length Petal.Width Species ## <dbl> <dbl> <dbl> <dbl> <fct> ## 1 5.1 3.5 1.4 0.2 setosa ## 2 4.9 3 1.4 0.2 setosa...

This article describes how to compute summary statistics, such as mean, sd, quantiles, across multiple numeric columns. Key R functions and packages The dplyr package is required. We’ll use the function across() to make computation across multiple columns. Usage: across(.cols = everything(),...

04 Apr

dplyr: How to Compute Summary Statistics Across Multiple Columns

Alboukadel

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This article describes how to compute summary statistics, such as mean, sd, quantiles, across multiple numeric columns. Key R functions and packages The dplyr package is required. We’ll use the function across() to make computation across multiple columns. Usage: across(.cols = everything(),...

You will learn how to create beautiful plots in R and add summary summary statistics table such as sample size (n), median, mean and IQR onto the plot. We will also describes how to create multipanel graphics combined with the summary table. Examples of...

01 Apr

How to Create a Beautiful Plots in R with Summary Statistics Labels

Alboukadel

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You will learn how to create beautiful plots in R and add summary summary statistics table such as sample size (n), median, mean and IQR onto the plot. We will also describes how to create multipanel graphics combined with the summary table. Examples of...

R codes are provided for creating a nice box and whisker plot in R with summary table under the plot. # Load required R packages library(ggpubr) # Data preparation df <- ToothGrowth head(df) ## len supp dose ## 1 4.2 VC 0.5 ## 2...

01 Apr

How to Create a Nice Box and Whisker Plot in R

Alboukadel

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R codes are provided for creating a nice box and whisker plot in R with summary table under the plot. # Load required R packages library(ggpubr) # Data preparation df <- ToothGrowth head(df) ## len supp dose ## 1 4.2 VC 0.5 ## 2...

# Load required R packages suppressPackageStartupMessages(library(ggpubr)) suppressPackageStartupMessages(library(dplyr)) # Example of data from statistical tests stat.test <- tibble::tribble( ~supp, ~group1, ~group2, ~p.adj, ~p.signif, "VC", "0.5", "1", 3.4e-06, "****", "VC", "0.5", "2", 2.8e-07, "****", "VC", "1", "2", 0.00026, "****", "OJ", "0.5", "1", 0.00026, "****", "OJ", "0.5",...

29 Mar

How to Draw a Textual Table with GGPLOT and Color Cells Conditionally

Alboukadel

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# Load required R packages suppressPackageStartupMessages(library(ggpubr)) suppressPackageStartupMessages(library(dplyr)) # Example of data from statistical tests stat.test <- tibble::tribble( ~supp, ~group1, ~group2, ~p.adj, ~p.signif, "VC", "0.5", "1", 3.4e-06, "****", "VC", "0.5", "2", 2.8e-07, "****", "VC", "1", "2", 0.00026, "****", "OJ", "0.5", "1", 0.00026, "****", "OJ", "0.5",...

This article how to visualize distribution in R using density ridgeline. The density ridgeline plot is an alternative to the standard geom_density() function that can be useful for visualizing changes in distributions, of a continuous variable, over time or...

22 Mar

Elegant Visualization of Density Distribution in R Using Ridgeline

Alboukadel

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This article how to visualize distribution in R using density ridgeline. The density ridgeline plot is an alternative to the standard geom_density() function that can be useful for visualizing changes in distributions, of a continuous variable, over time or...

Prerequisites # Load required R packages library(tidyverse) library(rstatix) library(ggpubr) Data preparation We’ll use the anxiety dataset , which contains the anxiety score, measured at three time points (t1, t2 and t3), of three groups of individuals practicing physical exercises at different...

22 Mar

How to Perform Multiple Paired T-tests in R

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Prerequisites # Load required R packages library(tidyverse) library(rstatix) library(ggpubr) Data preparation We’ll use the anxiety dataset , which contains the anxiety score, measured at three time points (t1, t2 and t3), of three groups of individuals practicing physical exercises at different...