addCellType: Add a new cell type

In monocle: Clustering, differential expression, and trajectory analysis for single- cell RNA-Seq

Description

adds a cell type to a pre-existing CellTypeHierarchy and produces a function that accepts expression data from a CellDataSet. When the function is called on a CellDataSet a boolean vector is returned that indicates whether each cell is or is not the cell type that was added by addCellType.

Usage

addCellType(cth, cell_type_name, classify_func,
  parent_cell_type_name = "root")

Arguments

cth	The CellTypeHierarchy object
cell_type_name	The name of the new cell type. Can't already exist in cth
classify_func	A function that returns true when a cell is of the new type
parent_cell_type_name	If this cell type is a subtype of another, provide its name here

monocle documentation built on Nov. 8, 2020, 5:06 p.m.