ggcorrplot | Visualization of a correlation matrix using ggplot2 | Data Visualization library

by kassambara R Version: v0.1.3 License: No License

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kandi X-RAY | ggcorrplot Summary

ggcorrplot is a R library typically used in Analytics, Data Visualization applications. ggcorrplot has no vulnerabilities and it has low support. However ggcorrplot has 2 bugs. You can download it from GitHub.

The ggcorrplot package can be used to visualize easily a correlation matrix using ggplot2. It provides a solution for reordering the correlation matrix and displays the significance level on the correlogram. It includes also a function for computing a matrix of correlation p-values. Find out more at

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Support

ggcorrplot has a low active ecosystem.

It has 138 star(s) with 31 fork(s). There are 6 watchers for this library.

It had no major release in the last 12 months.

There are 15 open issues and 13 have been closed. On average issues are closed in 180 days. There are 1 open pull requests and 0 closed requests.

It has a neutral sentiment in the developer community.

The latest version of ggcorrplot is v0.1.3

Quality

ggcorrplot has 2 bugs (0 blocker, 0 critical, 0 major, 2 minor) and 0 code smells.

Security

ggcorrplot has no vulnerabilities reported, and its dependent libraries have no vulnerabilities reported.

ggcorrplot code analysis shows 0 unresolved vulnerabilities.

There are 5 security hotspots that need review.

License

ggcorrplot does not have a standard license declared.

Check the repository for any license declaration and review the terms closely.

Without a license, all rights are reserved, and you cannot use the library in your applications.

Reuse

ggcorrplot releases are available to install and integrate.

Installation instructions, examples and code snippets are available.

It has 1204 lines of code, 0 functions and 9 files.

It has low code complexity. Code complexity directly impacts maintainability of the code.

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ggcorrplot Key Features

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ggcorrplot Examples and Code Snippets

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Community Discussions

Trending Discussions on ggcorrplot

How to replicate correlation plot with greyscale coefficients in the lower half and circles in upper half?

Will ggcorplot() create a correlation matrix for lm() model having two dependent variables?

Add annotation to axis text for ggcorrplot

how to add colored tick label to ggplot2?

Transformation from long to wide with multiple observations in R

ggcorrplot2 shows different significance asterisks

how to change the background color of padding in Shiny

How to build correlation matrix plot using specified multiple variables on x and y axis in r

Show asterisk for significant p values in ggcorrplot

Change orientation of diagonal of correlation plot using ggcorrplot package - if type "upper" or "lower"

QUESTION

How to replicate correlation plot with greyscale coefficients in the lower half and circles in upper half?

Asked 2022-Apr-16 at 10:49

I'm looking to replicate this correlation plot, or at least get as close as possible to it.

Specifically, I want:

the correlation values in the lower half, with values varying on a greyscale based on absolute value
the circles in the top half, with varying diameter and on the colour scale.
I want to be able to edit the axis scale labels so that full descriptions are on the y-axis, and numeric references on the x-axis

I have gotten relatively close, but have not managed precise enough replication. I describe my closest attempts below with reproducible code. The corrplot package has gotten me closest.

...

ANSWER

Answered 2022-Apr-16 at 10:49

Out-of-the-box options are quick and nice. However, when it comes to customizing then IMHO it may be worthwhile to build up the plot from scratch using ggplot2. As a first step this involves some data wrangling to get you correlation matrix into the right shape. Also in this step I convert the categories to factors and a numeric id. Based on the ids I split the data in the upper and lower diagonal values which could then be plotted separately using a geom_point and a geom_text. Besides that it's important to add the drop=FALSE to the x and y scale to keep all factor levels and the right order. Also I use some functions to get the desired axis labels:

EDIT: Following the suggestion by @AllanCameron I added a coord_equal as the "final" touch to get a nice square matrix like look. And Thanks to @RichtieSacramento the code now maps the absolute value on the size aes.

Source https://stackoverflow.com/questions/71890644

QUESTION

Will ggcorplot() create a correlation matrix for lm() model having two dependent variables?

Asked 2022-Apr-15 at 16:20

I've created a variance-covariance matrix using vcov(). My sense is that ggcorrplot will visualize the matrix, but I can't make it work. I suspect it's because I've got two dependent variables, because all is fine when I do the same with a fit containing only one dependent variable. Where am I going wrong? Here is some data:

...

ANSWER

Answered 2022-Apr-15 at 16:20

Edit 2: Try lm only with the significant variables from the full model. Also, with increasing observations, the covariance matrix does appear to get sparser. This may be because of the junk data you added or actually a phenomenon in your data, that there is no covariance structure...

Source https://stackoverflow.com/questions/71885362

QUESTION

Add annotation to axis text for ggcorrplot

Asked 2022-Mar-07 at 17:20

I am using ggcorrplot to plot the correlation matrix of large datasets. The problem is that it's difficult to see the labels of the axis text (in the example below it would be e.g., sample1). Associated to each label, I have another label (in the example below it would be e.g., normal for sample1). Is it possible to annotate the axis text labels with a parenthesis or a box around each level of the samples' labels?

...

ANSWER

Answered 2022-Mar-07 at 17:20

The exact look you are going for is not achievable directly within ggplot. You can do it by adding shapes manually using grid, but I note that you feel this is not really an option.

One logically equivalent and similar look could be achieved with facets, though that requires fiddling with the output of ggcorrplot:

Source https://stackoverflow.com/questions/71384551

QUESTION

how to add colored tick label to ggplot2?

Asked 2022-Jan-08 at 09:16

I am new to R and recently generate this bubble heatmap using ggplot2. I would like to add colored ticks to top of my figure. I have 7 different colors on the x axis and would like to add a set of colored squares matching to the text, to top of the chart and underneath the label. Thank you and appreciated any help. Please see the link for the data. Text https://drive.google.com/file/d/13mPQaCmhb6pABQ102srafQPryc6r8hNg/view?usp=sharing

Here is my code,

...

ANSWER

Answered 2022-Jan-08 at 09:16

One option to add some colored squares beneath your colored labels would be via an additional geom_text layer. As the label I use a filled square with UTF-8 code "\u25A0".

Using some fake random data to mimic your real data:

Source https://stackoverflow.com/questions/70629141

QUESTION

Transformation from long to wide with multiple observations in R

Asked 2021-Dec-17 at 09:01

I want to transform a data set from long to wide. The data contains multiple observations for each time point.

To illustrate, consider the following two examples.

In EXAMPLE 1 below, the data does not contain multiple observations and can be transformed from long to wide.

In EXAMPLE 2 below, the data does contain multiple observations (n=3 per time point) and cannot be transformed from long to wide, testing with dcast and pivot_wider.

Can anyone suggest a method to transform the test data from EXAMPLE 2 into a valid format?

Code to reproduce the problem:

...

ANSWER

Answered 2021-Dec-17 at 08:13

Since there are multiple values, it is not obvious how these should be treated when converting to a wide format. That's why you get the warning messages. This is one way of handling them. If you want something else, then please give a specific example of what the output should look like.

Source https://stackoverflow.com/questions/70389080

QUESTION

ggcorrplot2 shows different significance asterisks

Asked 2021-Oct-13 at 07:40

does anybody have an idea why ggcorrplot2 shows different significance asterisks than ggcorrplot? Very confusing to me.

https://github.com/caijun/ggcorrplot2

...

ANSWER

Answered 2021-Oct-13 at 07:40

data(mtcars)
cor.matrix <- corr.test(mtcars,method = "spearman", adjust = "BH", alpha = 0.05, ci = F)
corr <- cor.matrix[["r"]]
p.mat <- cor.matrix[["p"]]
p.mat[lower.tri(p.mat)] <- t(p.mat)[lower.tri(p.mat)] #to get only the adjusted p.Values symmetrically over the plot

p.mat[lower.tri(p.mat, diag = T)] <- 1 #to set the lower triangle to 1 (this way the asterisks wont be displayed on this part of the graph)
corrplot.mixed(corr, order= "original",mar=c(0,0,2,0), tl.col = 'black', p.mat = p.mat, insig = "label_sig", sig.level = c(.001, .01, .05), pch.cex=1.5, tl.cex = .8, number.font=2, number.cex=0.8)

Source https://stackoverflow.com/questions/69539460

QUESTION

how to change the background color of padding in Shiny

Asked 2021-Jul-09 at 01:32

my plot below has padding between subplots or padding to the top/bottom or left/right depending on size of the app window. I'm totally happy with the spacing and layout management happening here, and want to keep the flexibility as the number of plots grows or shrinks (or the app window resizes) to have things sized dynamically. however, I want the background color of this padding to be the same gray background as the app rather than white.

...

ANSWER

Answered 2021-Jul-09 at 01:32

This question can be solved on the plotting methods instead from the shiny side. Use cowplot::ggdraw to solve the problem:

Source https://stackoverflow.com/questions/68305703

QUESTION

How to build correlation matrix plot using specified multiple variables on x and y axis in r

Asked 2021-Jun-05 at 17:01

I have a data frame with multiple variables. I can easily make a correlation matrix plot with their coefficient values by the given

...

ANSWER

Answered 2021-Jun-05 at 17:01

corrplot::corrplot(cor(data[-c(1:2)])[1:4,5:7], method = "number")

Source https://stackoverflow.com/questions/67851418

QUESTION

Show asterisk for significant p values in ggcorrplot

Asked 2021-May-23 at 03:12

I wanted to ask is it possible to customize the p value representation in ggcorrplot such that instead of having insignificant correlations marked with a cross, the significant p values are marked with an asterisk instead? Which would hopefully look something like so:

...

ANSWER

Answered 2021-May-23 at 03:12

Update: So I decided to look at the source code and tinkered a bit with it to produce the format I wanted to achieve. If you copy the whole code for the ggcorrplot() function, then on line 215 the original code is:

p.mat <- subset(p.mat, p.mat$value > sig.level)

Substitute this with:

p.mat <- subset(p.mat, p.mat$value <= sig.level & p.mat$value != 0)

The != 0 part is assuming you would choose the full correlation plot and is there to prevent the diagonal in the middle from having the asterisk and I believe no p value should practically be 0 so it should be fine.

Then on line 295 I added the position argument inside the function:

Source https://stackoverflow.com/questions/67646967

QUESTION

Change orientation of diagonal of correlation plot using ggcorrplot package - if type "upper" or "lower"

Asked 2021-May-14 at 07:43

I have a follow-up question to the one here.

This person wanted to make a correlation plot with ggcorrplot from the package ggcorrplot. However, they wanted to have the diagonal going down the matrix instead of up from left to right. So, they wanted to make the graph look like the correlation matrix that they used as input:

...

ANSWER

Answered 2021-May-14 at 07:25

When I want to show only the half of a correlation matrix I use this (from GGally package):

Source https://stackoverflow.com/questions/67530405

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Install ggcorrplot

ggcorrplot can be installed from CRAN as follow:.

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