corr_heatmap {TOmicsVis}

Correlation Heatmap for samples/groups based on Pearson algorithm.

Description

Correlation Heatmap for samples/groups based on Pearson algorithm.

Usage

corr_heatmap(
  data,
  corr_method = "pearson",
  cell_shape = "square",
  fill_type = "full",
  lable_size = 3,
  axis_angle = 45,
  axis_size = 12,
  lable_digits = 3,
  color_low = "blue",
  color_mid = "white",
  color_high = "red",
  outline_color = "white",
  ggTheme = "theme_light"
)

Arguments

data

Dataframe: All genes in all samples expression dataframe of RNA-Seq (1st-col: Genes, 2nd-col~: Samples).

corr_method

Character: correlation method. Default: "pearson", options: "pearson", "spearman", "kendall".

cell_shape

Character: heatmap cell shape. Default: "square", options: "circle", "square".

fill_type

Character: heatmap fill type. Default: "full", options: "upper", "low", "full".

lable_size

Numeric: heatmap label size. Default: 3, min: 0.

axis_angle

Numeric: axis rotate angle. Default: 45, min: 0, max: 360.

axis_size

Numberic: axis font size. Default: 12, min: 0.

lable_digits

Numeric: heatmap label digits. Default: 3, min: 0, max: 3.

color_low

Character: low value color name or hex value. Default: "blue".

color_mid

Character: middle value color name or hex value. Default: "white".

color_high

Character: high value color name or hex value. Default: "red".

outline_color

Character: outline color name or hex value. Default: "white".

ggTheme

Character: ggplot2 theme. Default: "theme_light", options: "theme_default", "theme_bw", "theme_gray", "theme_light", "theme_linedraw", "theme_dark", "theme_minimal", "theme_classic", "theme_void".

Value

Plot: heatmap plot filled with Pearson correlation values and P values.

Author(s)

benben-miao

Examples

# 1. Library TOmicsVis package
library(TOmicsVis)

# 2. Use example dataset gene_exp
data(gene_expression)
head(gene_expression)

# 3. Default parameters
corr_heatmap(gene_expression)

# 4. Set color_low = "#008800"
corr_heatmap(gene_expression, color_low = "#008800")

# 5. Set cell_shape = "circle"
corr_heatmap(gene_expression, cell_shape = "circle")