tidy.rcorr: Tidy a(n) rcorr object

Description

Tidy summarizes information about the components of a model. A model component might be a single term in a regression, a single hypothesis, a cluster, or a class. Exactly what tidy considers to be a model component varies cross models but is usually self-evident. If a model has several distinct types of components, you will need to specify which components to return.

Usage

# S3 method for rcorr
tidy(x, diagonal = FALSE, ...)

Arguments

An rcorr object returned from Hmisc::rcorr().

diagonal

Logical indicating whether or not to include diagonal elements of the correlation matrix, or the correlation of a column with itself. For the elements, estimate is always 1 and p.value is always NA. Defaults to FALSE.

...

Additional arguments. Not used. Needed to match generic signature only. Cautionary note: Misspelled arguments will be absorbed in ..., where they will be ignored. If the misspelled argument has a default value, the default value will be used. For example, if you pass conf.lvel = 0.9, all computation will proceed using conf.level = 0.95. Additionally, if you pass newdata = my_tibble to an augment() method that does not accept a newdata argument, it will use the default value for the data argument.

Value

A tibble::tibble with one row for each unique pair of columns in the correlatin matrix and columns:

column1

Name or index of the first column being described

column2

Name or index of the second column being described

estimate

Estimate of Pearson's r or Spearman's rho

Number of observations used to compute the correlation

p.value

P-value of correlation

Details

Suppose the original data has columns A and B. In the correlation matrix from rcorr there may be entries for both the cor(A, B) and cor(B, A). Only one of these pairs will ever be present in the tidy output.

Examples

Run this code

# NOT RUN {
if (requireNamespace("Hmisc", quietly = TRUE)) {

    library(Hmisc)
    
    mat <- replicate(52, rnorm(100))
    # add some NAs
    mat[sample(length(mat), 2000)] <- NA
    # also column names
    colnames(mat) <- c(LETTERS, letters)

    rc <- rcorr(mat)

    td <- tidy(rc)
    td

    library(ggplot2)
    ggplot(td, aes(p.value)) +
        geom_histogram(binwidth = .1)

    ggplot(td, aes(estimate, p.value)) +
        geom_point() +
        scale_y_log10()
}

# }