performClusterSpecificQC: Filter the dataset and remove genes and cells that could be...

In linquynus/RCAv2-beta: Reference Component Analysis

Description

Filter the dataset and remove genes and cells that could be of poor quality using user-defined thresholds

Usage

performClusterSpecificQC(
  rca.obj,
  cluster.labels,
  nGene.low.thresholds = NULL,
  nGene.high.thresholds = NULL,
  nUMI.low.thresholds = NULL,
  nUMI.high.thresholds = NULL,
  pMito.low.thresholds = NULL,
  pMito.high.thresholds = NULL
)

Arguments

rca.obj	RCA object.
cluster.labels	vector of cluster labels
nGene.low.thresholds	numeric vector with lower nGene thresholds. Length of vector should be length(unique(cluster.labels)).
nGene.high.thresholds	numeric vector with upper nGene thresholds. Length of vector should be length(unique(cluster.labels)).
nUMI.low.thresholds	numeric vector with lower nUMI thresholds. Length of vector should be length(unique(cluster.labels)).
nUMI.high.thresholds	numeric vector withupper nUMI thresholds. Length of vector should be length(unique(cluster.labels)).
pMito.low.thresholds	numeric vector with lower pMito thresholds. Length of vector should be length(unique(cluster.labels)).
pMito.high.thresholds	numeric vector and upper pMito thresholds. Length of vector should be length(unique(cluster.labels)).

Value

RCA object.

linquynus/RCAv2-beta documentation built on Aug. 9, 2020, 12:34 a.m.