combine.subclusterings: Combine multiple subclustering with initial one

In jgarces02/FlowCT: A semi-automated workflow for deconvolution of immunophenotypic data and objective reporting on large datasets

Combine multiple subclustering with initial one

Description

It combines initial fcs.SCE object (without subclustering) with other fcs.SCE objects with subclustering analysis coming from downstream steps and generates a new fcs.SCE object. This final fcs.SCE object has an additional column combining all information from initial and subclustering analysis.

Usage

combine.subclusterings(
  global.fcs.SCE,
  subclustering.fcs.SCE,
  clusters.named
)

Arguments

global.fcs.SCE	A fcs.SCE object generated through FlowCT::fcs.SCE(). The initial one, without extracting any cell population.
subclustering.fcs.SCE	A list with all fcs.SCE object(s) generated in the subclustering analysis (they have to come from the original initial.fcs.SCE).
clusters.named	Column names from the global.fcs.SCE and global.fcs.SCE objects which contains renamed clusters (through FlowCT::clusters.rename()).

Examples

## Not run: 
 fcs_final <- combine.subclusterings(initial.fcs.SCE = fcs, 
   clusters.named = c("SOM_named", "SOM_named_lymhpos", "SOM_named_monos"),
   subclustering.fcs.SCE = list(fcs_lymphos, fcs_monos))

## End(Not run)

jgarces02/FlowCT documentation built on March 28, 2023, 12:42 p.m.