runWalk: Walk between root cells and leaf cells

In JhuangLab/CytoTree: A Toolkit for Flow And Mass Cytometry Data

Description

Walk between root cells and leaf cells

Usage

runWalk(
  object,
  mode = c("undirected", "directed", "max", "min", "upper", "lower", "plus"),
  max.run.forward = 20,
  backward.walk = FALSE,
  max.run.backward = 20,
  verbose = FALSE,
  ...
)

Arguments

object	A CYT object
mode	character. Specifies how igraph should interpret the supplied matrix. Possible values are: undirected, directed, upper, lower, max, min, plus. By default is undirected.
max.run.forward	numeric. Maximum cycles of forward walk.
backward.walk	logical. Whether to run backward walk.
max.run.backward	numeric. Maximum cycles of backward walk.
verbose	logical. Whether to print calculation progress.
...	Parameters passing to calculation function.

Value

A CYT object

Examples

cyt.file <- system.file("extdata/cyt.rds", package = "CytoTree")
cyt <- readRDS(file = cyt.file)

cyt <- runWalk(cyt, verbose = TRUE)
cyt <- runWalk(cyt, backward.walk = FALSE, verbose = TRUE)

JhuangLab/CytoTree documentation built on Nov. 16, 2020, 7:23 a.m.