clusterMonocle: Monocle Clustering Pipeline

In dbdimitrov/BugleSeq: BingleSeq RNA-Seq Data Analysis

Description

Monocle Clustering Pipeline

Usage

clusterMonocle(
  s_object,
  lowerDetection,
  redMethod,
  clustMethod,
  dimensionNo,
  estimateClust,
  clustNo,
  session
)

Arguments

s_object	Seurat object with scaled and PCA data
lowerDetection	The minimum expression level that consistitutes true expression
redMethod	Dimension reduction method to be used
dimensionNo	Number of Dimensions to be used in clustering (tSNE)
estimateClust	Boolean - Whether to estimate cluster No or not
clustNo	If estimateClust is False - provide number of desired clusters

Value

Returns a list containing a Seurat object with Monocle-produced clustering data and tSNE plot

dbdimitrov/BugleSeq documentation built on July 17, 2021, 1:02 p.m.