ggpubr | 'ggplot2 ' Based Publication Ready Plots | Data Visualization library

I am trying to add y axis labels to my figure (a compilation of 6 figures in a 2x3 arrangement. The top 3 figures are part of one group, and the bottom 3 are part of another so I'd like to add two separate y axis labels at the start of each row. I am using the ggarrange function in {ggpubr}.

The image below is what I would like to have (i.e. the additional "Abundance" and "Presence/Absence" labels.

Below is the code I am using:

This is a follow up question to Combine ggflags with linear regression in ggplot2

I have a plot like below with a log-linear model for x and y for certain countries that I have made in R with ggplot2 and ggflags:

The problem is when I want to print out the regression equation, the R2 and the p-value with the help of stat_regline_equation and stat_cor, I get values for a linear model and not the log-linear model I want to use.

How can I solve this?

I have got survival data, based on quartiles of delta_mon1_baselone_to_3d. Outcomes is mace.

Cox regression for each quartile are obtained with this code:

I'm trying to produce a figure containing multiple ggplot2 plots arranged by ggarrange from the package ggpubr and annotated on the left side. The ggplot2 plots are transparent or have a transparent background.

The issue arose lately (i.e. I did not confront it this year earlier) where a light grey line appears between the plots and the annotation text on the left side as shown in the image below. And it is more prominent when the figure is inserted in LaTeX.

I tried to play with the individual plots, but there is no plot.border only panel.border, thus, all my trials were not successful!

My maschine information:

R 3.6.3 on Ubuntu 20.04.2 LTS

ggplot2 3.3.5

ggpubr 0.4.0

The code I used to produce it (and was inspired by this):

I am trying to install factoextra, but I gets stuck during the CMake part, in particular with error like:

CMake Error: The source directory "/tmp/..." does not exist.

(same when I try to install its dependencies: nloptr, pbkrtest, lme4, car, rstatix, FactoMineR, ggpubr )

any idea?

thanks

ps:

• R version 4.0.0
• centos 7

last part of logs:

I am looking at biological data of guinea pig with 2 treatment groups (hifat or no hifat diet) and when I facet_wrap the boxplots and add the stat_compare_means (t.test) function, the p-value is cut off. When I remove the scales="free", it still cuts off the p-value. I used the function to move the wording but since all graphs have different scales a fixed value for instance at y=1 would force all the axes to be the same. Would love any guidance.

I am trying to make an interaction plot in sjPlot showing percent probabiliites of my outcome under two conditions of my predictive variable. Everything works perfectly, except the show.values = T and sort.est = T arguments, which don't seem to do anything. Is there a way to get this to work? Or, if not, how can I extract the dataframe sjPlot is using to create this figure? Looking for some way to either label or tabulate the displayed probability values. Thank you!

Here is some example data and what I have so far:

I am trying to label the left facet side of my graph while leaving out the annotations on the right side.

Here are my libraries and data:

I am trying to add a subscript to a ggpubr graph, which I found that I can do quite easily using parse and a set of square brackets. However, the problem is that within the axis label, I have a second set of square brackets that should be in regular type. Something like this: