ScorePipelineCells: Score cells with a KDE classifier.

In kharchenkolab/dropestr: Preprocessing of Droplet-Based Single-Cell RNA-Seq Data

Description

Score cells with a KDE classifier.

Usage

ScorePipelineCells(
  pipeline.data,
  mitochondrion.genes = NULL,
  mit.chromosome.name = NULL,
  tags.data = NULL,
  filter.mitochondrial = NULL,
  filter.intergenic = TRUE,
  mit.fraction.threshold = NULL,
  intergenic.fraction.threshold = NULL,
  max.pcs.number = 3,
  predict.all = FALSE,
  verbose = FALSE,
  kde.bandwidth.mult = 1,
  cell.number = NULL
)

Arguments

pipeline.data	data for classification
mitochondrion.genes	(default=NULL)
mit.chromosome.name	(default=NULL)
tags.data	(default=NULL)
filter.mitochondrial	(default=NULL)
filter.intergenic	boolean (default=TRUE)
mit.fraction.threshold	(default=NULL)
intergenic.fraction.threshold	(default=NULL)

Value

Probability of cell to be high-quality

kharchenkolab/dropestr documentation built on Sept. 18, 2020, 2:14 a.m.