runSlingshot: run Slingshot

In Morriseylab/scExtras: Single cell data analysis helper functions

run Slingshot

Description

run Slingshot

Usage

runSlingshot(
  object,
  reduction = "dm",
  group.by = NULL,
  start.clus = NULL,
  end.clus = NULL,
  approx_points = FALSE,
  allow.breaks = TRUE,
  extend = "n",
  stretch = 0
)

Arguments

object	Seurat object
reduction	Reduction method. Default is 'dm'
start.clus	start cluster
end.clus	end cluster
allow.breaks	logical, determines whether curves that branch very close to the origin should be allowed to have different starting points.
extend	acter, how to handle root and leaf clusters of lineages when constructing the initial, piece-wise linear curve. Accepted values are 'y' (default), 'n', and 'pc1'. See 'Details' for more.
stretch	numeric factor by which curves can be extrapolated beyond endpoints. Default is 2, see principal_curve.
group, by	groups

Morriseylab/scExtras documentation built on July 10, 2024, 6:41 a.m.