plot_scatter: plot_scatter

In soulong/bioTools: a bundle of tools faciliating RNAseq DGEs analysis, enrichment analysis

plot_scatter

Description

plot scatter plot for pairwise comparison

Usage

plot_scatter(
  expr,
  x,
  y,
  dge_genes = NULL,
  transform_method = "vst",
  filter_low_values = 1,
  size = 1.5,
  alpha = 0.7,
  title = "Pairwsie scatter point",
  xlim = NULL,
  ylim = NULL,
  ns_resampling = 1000,
  color = "grey50",
  dge_genes_color = "red2"
)

Arguments

expr	data.frame of expressing values, rownames are gene names and colnames are sample/group names, all columns are expressing values, for better transform estimation, expr should be include all sample instead of only inculde column x and y, if possible
x	x-axis name, corelated to one column name of expr
y	y-axis name, corelated to one column name of expr
dge_genes	character vector of differential changed genes, corelated to rownames of expr
transform_method	matrix transform method, one of vst, rlog or none
filter_low_values	numeric, filter rowMeans low value rows
size	point size
alpha	point transparency
title	plot title
xlim	two element numeric vector, restrict x axis, default: NULL
ylim	two element numeric vector, restrict y axis, default: NULL
ns_resampling	numeric, downsampling points
color	character vector, map point color
dge_genes_color	character vector, map dge_genes point color

Value

ggplot2 object

soulong/bioTools documentation built on Aug. 23, 2023, 1:35 a.m.