do_flowsom: Run flowsom on a melted data table

In BodenmillerGroup/bbRtools: A helper package to for cyTOF R scripts

Description

Run flowsom on a melted data table

Usage

do_flowsom(data, channels, valuevar = "counts_transf",
  channelvar = "channel", idvar = "id", k = 20, seed = FALSE,
  subsample = FALSE, return_output = FALSE, ...)

Arguments

data	a data frame in the long format
channels	a list of channel names to use
valuevar	the column to take as value variable
channelvar	the column to take as channel variable
idvar	the column to toake as id variable
k	the number of clusters to use for metaclustering
seed	the random seed - if provided
subsample	number of cells to use for subsampling - if provided
return_output	should the cluster algorithm output be provided? If so the return value will be a list with the table and the original output.

Value

at table with a column cluster and a column idvar

BodenmillerGroup/bbRtools documentation built on May 20, 2020, 1:36 a.m.