orient_topology_to_velocity: Reorients the edges of the milestone network to the cell's...

In dynverse/scvelo: An R wrapper around the great "scvelo" python package

Description

Reorients the edges of the milestone network to the cell's RNA velocity vectors

Usage

orient_topology_to_velocity(
  trajectory,
  velocity = trajectory$velocity,
  expression_source = trajectory,
  expression = dynwrap::get_expression(expression_source, "expression"),
  expression_future = dynwrap::get_expression(expression_source, "expression_future")
)

Arguments

trajectory	The trajectory as created by infer_trajectory() or add_trajectory()
velocity	The velocity object as generated by [get_velocity()].
expression_source	The source of expression, can be "counts", "expression", an expression matrix, or another dataset which contains expression
expression	The normalised expression values of genes (columns) within cells (rows). This can be both a dense and sparse matrix.
expression_future	Projected expression using RNA velocity of genes (columns) within cells (rows). This can be both a dense and sparse matrix.

Value

The trajectory with oriented *milestone_network* and *progressions*

dynverse/scvelo documentation built on April 9, 2020, 3:42 a.m.