mcell_mc2d_plot_gene: Plot the (log2) metacell footprint value of the selected gene...

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

Plot the (log2) metacell footprint value of the selected gene on the 2d projection

Description

Plot the (log2) metacell footprint value of the selected gene on the 2d projection

Usage

mcell_mc2d_plot_gene(
  mc2d_id,
  gene,
  show_mc_ids = F,
  show_legend = T,
  neto_points = F,
  max_lfp = NA,
  min_lfp = NA,
  color_cells = F,
  mat_ds = NULL,
  zero_sc_v = 0,
  one_sc_v = 1,
  two_sc_v = 2,
  base_dir = NULL,
  filt_mc = NULL
)

Arguments

mc2d_id	mc2d object to use for plot
gene	gene name to plot
show_mc_ids	plot metacell ids (false by default)
show_legend	plot color bar legend (true by default)
neto_points	do not plot box, title and legend
color_cells	(F default) should cells be colored by UMIs
mat_ds	downsampled matrix for coloring cells
zero_sc_v	num of umis to consdier as 0 for cell coloring (def 0)
one_sc_v	num of umis to consdier as 1 for cell coloring (def 1)
base_dir	override the default base directory if not null
filt_mc	(defulat is NULL) - factor to determine which metacells to plot
tw_sc_v	num of umis to consdier as 1 for cell coloring (def 2)

tanaylab/metacell documentation built on Oct. 19, 2023, 1:01 p.m.