plotSubtypeMarkers: Plot Subtype Markers

In khodosevichlab/CellAnnotatoR: Automated marker-based cell type annotation

Plot Subtype Markers

Description

plot markers for all subtypes of the specified 'parent.type'

Usage

plotSubtypeMarkers(
  embedding,
  count.matrix,
  parent.type = "root",
  clf.data = NULL,
  clf.tree = NULL,
  marker.list = NULL,
  show.legend = F,
  max.depth = NULL,
  build.panel = T,
  n.col = NULL,
  n.row = NULL,
  marker.type = c("expressed", "not_expressed"),
  title.size = 10,
  ...
)

Arguments

count.matrix	gene expression matrix with genes by columns and cells by rows
parent.type	cell type for which the markers of the subtypes must be plotted
marker.list	list of markers per cell type. Can be obtained with 'parseMarkerFile'
build.panel	combine individual plots to a single panel
n.col	number of columns in the panel
n.row	number of rows in the panel
title.size	font size for title of individual plots. Used only if build.panel==T
...	Arguments passed on to conos::embeddingPlot

khodosevichlab/CellAnnotatoR documentation built on June 29, 2022, 9:12 p.m.