diva_to_gatingset: Parse a FACSDiva Workspace

In RGLab/CytoML: A GatingML Interface for Cross Platform Cytometry Data Sharing

Parse a FACSDiva Workspace

Description

Function to parse a FACSDiva Workspace, generate a GatingHierarchy or GatingSet object, and associated flowCore gates.

Usage

diva_to_gatingset(
  obj,
  name = NULL,
  subset = NULL,
  path = obj@path,
  worksheet = c("normal", "global"),
  swap_cols = list(`FSC-H` = "FSC-W", `SSC-H` = "SSC-W"),
  verbose = FALSE,
  ...
)

Arguments

obj	diva_workspace
name	sample group to be parsed, either numeric index or the group name
subset	samples to be imported. either numeric index or the sample name. Default is NULL, which imports all samples.
path	the FCS data path
worksheet	select worksheet to import. either "normal" or "global"
swap_cols	diva seems to swap some data cols during importing fcs to experiments this argument provide a list to tell the parser which cols to be swapped default is list(‘FSC-H' = ’FSC-W',‘SSC-H' = ’SSC-W')
verbose	whether print more messages during the parsing
...	other arguments

RGLab/CytoML documentation built on Feb. 1, 2024, 12:34 a.m.