Convert Data to BulkPhyloExpressionSet — BulkPhyloExpressionSet_from

Convert a data frame with phylostratum, gene ID, and expression data into a BulkPhyloExpressionSet object.

Usage

BulkPhyloExpressionSet_from_df(
  data,
  groups = colnames(data[, 3:ncol(data)]),
  name = "PhyloExpressionSet",
  strata_legend = NULL,
  ...
)

data: A data frame where column 1 contains phylostratum information, column 2 contains gene IDs, and columns 3+ contain expression data
groups: A factor or character vector indicating which group each sample belongs to. Default uses column names from expression data
name: A character string naming the dataset. Default uses the variable name
strata_legend: A data frame with two columns: phylostratum assignments and name of each stratum. If NULL, no labels will be added (default: NULL) If NULL, uses sorted unique values from column 1
...: Additional arguments passed to BulkPhyloExpressionSet constructor

A BulkPhyloExpressionSet object