reduce_dimensions {scITD}

Gets a conos object of the data, aligning datasets across a specified variable such as batch or donors. This can be run independently or through get_subtype_prop_associations().

Description

Gets a conos object of the data, aligning datasets across a specified variable such as batch or donors. This can be run independently or through get_subtype_prop_associations().

Usage

reduce_dimensions(
  container,
  integration_var,
  ncores = container$experiment_params$ncores
)

Arguments

container

environment Project container that stores sub-containers for each cell type as well as results and plots from all analyses

integration_var

character The meta data variable to use for creating the joint embedding with Conos.

ncores

numeric The number of cores to use (default=container$experiment_params$ncores)

Value

The project container with a conos object in container$embedding.