mcell_mc_plot_gg: Utility plot function to compare two genes based on mc_fp

In tanaylab/metacell: Meta cell analysis for single cell RNA-seq data

Utility plot function to compare two genes based on mc_fp

Description

Utility plot function to compare two genes based on mc_fp

Usage

mcell_mc_plot_gg(
  mc_id,
  g1,
  g2,
  cex = 2,
  text_cex = 0.5,
  mc_colors = NULL,
  fig_fn = NULL,
  cell_md = NULL,
  md_mode = "filter",
  use_egc = F,
  main = NULL,
  cex.main = 1,
  xlim = NULL,
  ylim = NULL,
  add_grid = F,
  e_gc_eps = 0.00001,
  mc_filt = NULL,
  md = NULL,
  md_regexp = NULL,
  md_field = NULL
)

Arguments

mc_id	metacell id in scdb
g1	gene name
g2	gene name
cex	point size
text_cex	text size (default 0.5)
mc_colors	coloring vector per MC, default is NULL in which case we use the MC colors
fig_fn	file name for the figure (optional - default is current device)
cell_md	a factor/logical vector defining which cells are in the focus. If this is unspecified all cells/metacells will be included
md_mode	one of "filter", "highlight"
use_egc	plot log of absolute expression instead of the log of relative expression (normalized to the median over all MCs)
mc_filt	potential facator filtering metacell ids (default NULL)
md	metadata to use for highlighting/filtering
md_regexp	regular expression to filter/highlight metadata
md_field	metadata field to use

tanaylab/metacell documentation built on Jan. 29, 2025, 1:34 a.m.