Takes Utility_Coereba output, plus additional metadata,and returns as a Bioconductor Summarized Experiment object

Usage

Coereba_Processing(
  x,
  metadata = NULL,
  metadata_columns = NULL,
  Identity = "specimen",
  metadataTemplate = FALSE,
  outpath = NULL,
  panel
)

Arguments

x: An object with Coereba gating and metadata. Acccepted arguments include a file.path to an .fcs, a flowFrame or cytoFrame, and a data.frame.
metadata: A data.frame or file.path to a metadata.csv file
metadata_columns: A vector of column names from the metadata want to incorporate.
Identity: Column designating specimen in the metadata
metadataTemplate: When metadata is NULL, returns a template data.frame containing specimen list.
outpath: Default NULL, alternate a file.path to send metadataTemplate output to.
panel: A data.frame or file.path to a .csv containing Fluorophore and Marker columns

Value

A summarized experiment object

Examples


library(Coereba)