run_post_cluster: Post-Cluster Processing of SingleCellExperiment

In hms-dbmi/drugseqr: GUI to Explore Single-Cell and Bulk RNA-Seq from Fastq to Pathways and Perturbations

Post-Cluster Processing of SingleCellExperiment

Description

Performs the following: - downsampling (used for label transfer) - pseudobulk - saving data

Usage

run_post_cluster(
  scseq,
  dataset_name,
  sc_dir,
  resoln = 1,
  progress = NULL,
  value = 0,
  reset_annot = TRUE
)

Arguments

scseq	SingleCellExperiment
dataset_name	Name of dataset
sc_dir	Directory with single-cell datasets
resoln	resolution parameter
progress	progress
value	value
reset_annot	if TRUE then overwrites saved annotation with cluster indices. Set to FALSE when Azimuth is used as cluster annotation is defined.

hms-dbmi/drugseqr documentation built on Feb. 15, 2024, 10:38 p.m.