generateBinningInfo: generateBinningInfo

In SysBioChalmers/DSAVE-R: DSAVE: Tools to Investigate Variation and Purity of Subpopulations in Single-Cell RNA-Seq Data

Description

Creates the part of the template called the binning information from a dataset.

Usage

generateBinningInfo(
  data,
  lbnonlog = 5L,
  ubnonlog = 1300L,
  rescale = TRUE,
  numPoints = 1000L,
  poolSize = 500L,
  step = 5e-04,
  toplim = 1000L
)

Arguments

data	Numeric matrix
lbnonlog	lower bound in original scale. Should stretch a bit outside the intended range.
ubnonlog	upper bound in original scale. Should stretch a bit outside the intended range.
rescale	If the data should be rescaled to TPM before the calculation. Defaults to true.
numPoints	number of points for the distribution
poolSize	number of genes to pool at each point in the distribution
step	increase in lower and upper bound to get enough genes at each point in the distribution
toplim	maximum number of iterations to obtain the frequency at each point in the distribution

Value

list(means, lower bounds, upper bounds)

Author(s)

Juan Inda, <[e-mail]>

SysBioChalmers/DSAVE-R documentation built on Oct. 19, 2021, 11:37 p.m.