show missing values for each variable

show_variable_missing_values(
  object,
  color_by,
  order_by,
  percentage = FALSE,
  show_x_text = FALSE,
  show_x_ticks = FALSE,
  desc = FALSE
)

Arguments

object

(required) mass_dataset class object.

color_by

which column (in variable_info) is used to color variables

order_by

which column (in variable_info) is used to order variables

percentage

show MV percentage? TRUE or FALSE

show_x_text

show x axis text or not? TRUE or FALSE

show_x_ticks

show x ticks or not? TRUE or FALSE

desc

descend sample order or not. TRUE or FALSE.

Value

A ggplot2 object

Author

Xiaotao Shen shenxt1990@outlook.com

Examples

data("expression_data")
data("sample_info")
data("variable_info")

object =
  create_mass_dataset(
    expression_data = expression_data,
    sample_info = sample_info,
    variable_info = variable_info,
  )

object
#> -------------------- 
#> massdataset version: 1.0.12 
#> -------------------- 
#> 1.expression_data:[ 1000 x 8 data.frame]
#> 2.sample_info:[ 8 x 4 data.frame]
#> 3.variable_info:[ 1000 x 3 data.frame]
#> 4.sample_info_note:[ 4 x 2 data.frame]
#> 5.variable_info_note:[ 3 x 2 data.frame]
#> 6.ms2_data:[ 0 variables x 0 MS2 spectra]
#> -------------------- 
#> Processing information (extract_process_info())
#> 1 processings in total
#> create_mass_dataset ---------- 
#>       Package         Function.used                Time
#> 1 massdataset create_mass_dataset() 2022-08-07 19:33:18

##show missing values plot
show_variable_missing_values(object)

show_variable_missing_values(object, color_by = "mz")

library(ggplot2)
show_variable_missing_values(object, color_by = "rt") +
  ggplot2::scale_color_gradient(low = "skyblue", high = "red")


show_variable_missing_values(object, color_by = "mz",
                             order_by = "na")

show_variable_missing_values(object, color_by = "mz",
                             order_by = "na",
                           desc = TRUE, percentage = TRUE)