ggmRSCU (version 0.1.0)

read_phy: Process PhyloSuite RSCU Data for Visualization

Description

Processes Relative Synonymous Codon Usage (RSCU) data from PhyloSuite CSV files, preparing it for visualization with the `ggmRSCU` package.

Usage

read_phy(folder_path)

Value

Visualization-ready data frame with:

AA

Amino acid code

Codon

RNA triplet

Fill

Position index (1-6)

Species

Organism identifier

RSCU

Normalized usage values

Arguments

folder_path

Path to folder containing CSV files. Files must contain: - 'RSCU' column - Species-reflecting file names - Required columns: AA, Codon, Fill, RSCU

Details

Performs:

• File validation for required structure

• Species name extraction

• Data reshaping to long format

• NA removal

Examples

# Using example data
example_dir <- system.file("extdata", "phy", package = "ggmRSCU")
result <- read_phy(example_dir)
head(result)