get_clustering_sc3_subplan: Get a subplan for SC3 clustering.

In bioinfocz/scdrake: A pipeline for droplet-based single-cell RNA-seq data secondary analysis implemented in the drake Make-like toolkit for R language

Get a subplan for SC3 clustering.

Description

Get a subplan for SC3 clustering.

Usage

get_clustering_sc3_subplan(
  sce_target_name,
  cluster_sc3_enabled,
  cluster_sc3_k_,
  cluster_sc3_n_cores,
  is_integration,
  plots_out_dir,
  seed = 1
)

Arguments

sce_target_name	A character scalar: name of target representing a SCE object that will be used for SC3 clustering.
cluster_sc3_enabled	A logical scalar: if FALSE, disable the selected clustering and set all corresponding targets to NULL.
cluster_sc3_k_	An integer vector: ks for SC3.
cluster_sc3_n_cores	An integer scalar: number of cores to use for parallel execution of the SC3 algorithm.
is_integration	A logical scalar: if TRUE, clustering results will be named as ⁠cluster_int_sc3_k<k>⁠. If FALSE, they will be named as ⁠cluster_sc3_k<k>⁠.
plots_out_dir	A character scalar: path to output directory to save plots (e.g. clustree::clustree()).
seed	An integer scalar: random seed for SC3.

Value

drake::drake_plan()

bioinfocz/scdrake documentation built on Sept. 19, 2024, 4:43 p.m.