pseudotime_plot: Creates pseudotime

In Chris-Cherry/sctools: Single cell analysis tools package

Description

Creates pseudotime

Usage

pseudotime_plot(
  ser,
  out_dir = "4_pseudotime",
  cluster_start = NULL,
  cluster_end = NULL,
  cal_reduction = "phate",
  plot_reduction = "phate",
  group_by = NULL,
  lineage_ls = NULL
)

Arguments

ser	Seurat object to process
out_dir	Output directory
cluster_start	Indicate what cluster to start with
cluster_end	Indicate what cluster to end with
lineage_ls	User customized list of cluster that want to be perform slingshot on
subset_gse	User defined subset of gene set (Optional)
reduction	Reduction method

Chris-Cherry/sctools documentation built on Jan. 25, 2022, 2:19 p.m.