DSAVEGenerateTemplate: DSAVEGenerateTemplate

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

Description

Creates a template from an existing dataset and a gene list

Usage

DSAVEGenerateTemplate(
  ds,
  genesToUse = NULL,
  numCells = 2000,
  numUMIs = 750,
  fractionUpperOutliers = 0.025,
  fractionLowerOutliers = 0.025
)

Arguments

ds	a dataset, numerical matrix with genes as row names
genesToUse	(optional) List of genes to filter on in the template; defaults to the genes in ds
numCells	(optional) Number of cells to include in the template. Defaults to 2000.
numUMIs	(optional) Average number of UMIs per cell to aim for in the template Defaults to 750.
fractionUpperOutliers	the fraction of upper outliers that should be discarded. Defaults to 0.025.
fractionLowerOutliers	the fraction of lower outliers that should be discarded. Defaults to 0.025.

Value

list<...>

Author(s)

Johan Gustafsson, <[e-mail]>

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