Build column metadata for DESeq2.

Create a data.frame of sample metadata suitable for DESeq2::DESeqDataSetFromMatrix(). For charging count matrices, the charge_status factor is added automatically.

Usage

build_coldata(count_matrix, sample_info = NULL)

Arguments

count_matrix

A count matrix from abundance_count_matrix() or charging_count_matrix().

sample_info

An optional data frame with a sample_id column and additional experimental factor columns (e.g., condition, replicate). If NULL, a minimal data frame is created from column names.

Value

A data frame with row names matching colnames(count_matrix).

Examples

if (FALSE) { # \dontrun{
mat <- abundance_count_matrix(charging)
sample_info <- data.frame(
  sample_id = c("wt_1", "wt_2", "mut_1", "mut_2"),
  condition = c("wt", "wt", "mut", "mut")
)
coldata <- build_coldata(mat, sample_info)
} # }