compute_velocity: velocity wrapper, modularizes pipelined loading

In trichelab/velocessor: The world's dumbest single-cell RNA velocity calculator and loader

Description

FIXME: add CellRank inference of directions

Usage

compute_velocity(
  txis,
  embed = "UMAP",
  scvmode = "stochastic",
  cleanup = FALSE,
  ...
)

Arguments

txis	A SingleCellExperiment with assays 'spliced' and 'unspliced'
embed	Into which reducedDims() element shall scVelo project? (UMAP)
scvmode	scVelo mode (default "stochastic"; "dynamical" also available)
cleanup	clean up size factors (rather than droppping cells)? (FALSE)
...	Additional arguments passed to velociraptor::scvelo

Value

   A SingleCellExperiment with scVelo output in metadata() 

trichelab/velocessor documentation built on Jan. 5, 2022, 6:27 p.m.