Build a tRNA abundance count matrix from charging data.

Pivot charging data into an integer matrix suitable for DESeq2, where each row is a tRNA and each column is a sample. Values are total abundance (charged + uncharged counts).

Usage

abundance_count_matrix(charging_data, min_count = 10)

Arguments

charging_data

A tibble of combined charging data with columns ref, counts_charged, counts_uncharged, and sample_id (as returned by read_charging_multi()).

min_count

Minimum total count across all samples for a tRNA to be retained. Default 10.

Value

An integer matrix with tRNA names as row names and sample IDs as column names.

Examples

if (FALSE) { # \dontrun{
charging <- read_charging_multi(paths)
mat <- abundance_count_matrix(charging)
} # }