CrossSCC: CrossSCC: An Single-Cell Clustering analysis framework...

Description Usage Arguments Value Examples

View source: R/CrossSCC.R

Description

CrossSCC: An Single-Cell Clustering analysis framework Crossing batches of data

CrossSCC

Usage

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CrossSCC(
  m,
  markers,
  ncores = 16,
  verbose = R.utils::Verbose(threshold = -1, timestamp = TRUE),
  show.progress.bar = TRUE,
  log.file = NULL
)

Arguments

m

a matrix of single cell expression values.

markers

a dataframe contains marker information. Try examples for details.

ncores

number of CPU cores used.

verbose

verbose level. By default, CrossSCC will output all logs as well as progress bars.

show.progress.bar

Set to FALSE if you don't want to see progress bar.

log.file

a test/debug use option. Messages will be directed to this new text file instead of stderr(). Note that verbose threshold will be set to -1 with this parameter.

Value

a data.tree object.

Examples

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library(data.table)
markers <- fread(system.file("extdata", "markers.csv", package = "CrossSCC"))
data(immu)
handsome.zuo <- CrossSCC(immu, markers, ncores = 16)

bioinformatist/CrossSCC documentation built on April 24, 2020, 9:32 a.m.