CreateRdrop {rnaEditr} | R Documentation

## Calculates R-drop values for RNA editing sites.

### Description

Calculates the correlation coefficient between RNA editing levels of one site and the mean RNA editing levels of the rest of the sites in a region.

### Usage

    CreateRdrop(
      data,
      method = c("spearman", "pearson"),
      minEditFreq = 0.05,
      verbose = TRUE
    )

### Arguments

`data` | A data frame of RNA editing level values on individual sites, with row names as sample IDs and column names as site IDs in the form of "chrAA:XXXXXXXX".
`method` | Method for computing correlation. Defaults to `"spearman"`.
`minEditFreq` | Threshold for minimum percentage of edited samples for a given site. The `r_drop` value of the sites with frequency lower than `minEditFreq` will be set as NA. Please set a number between 0 and 1. Defaults to 0.05.
`verbose` | Should messages and warnings be displayed? Defaults to TRUE.

### Value

A data frame with the following columns:

- `site` : site ID.

- `r_drop` : the correlation between RNA editing levels of one site and the mean RNA editing levels of the rest of the sites.

### Examples

      data(t_rnaedit_df)

      ordered_cols <- OrderSitesByLocation(
        sites_char = colnames(t_rnaedit_df),
        output = "vector"
      )
      exm_data <- t_rnaedit_df[, ordered_cols]

      CreateRdrop(
        data = exm_data,
        method = "spearman"
      )

[Package rnaEditr version 1.4.0 Index]