plot_features_box {ReporterScore}

Plot features boxplot

Description

Plot features boxplot

Usage

plot_features_box(
  kodf,
  group = NULL,
  metadata = NULL,
  map_id = "map00780",
  select_ko = NULL,
  only_sig = FALSE,
  box_param = NULL,
  modulelist = NULL,
  KO_description = FALSE,
  str_width = 50
)

Arguments

kodf

KO_abundance table, rowname is ko id (e.g. K00001),colnames is samples. or result of 'get_reporter_score'

group

The compare group (two category) in your data, one column name of metadata when metadata exist or a vector whose length equal to columns number of kodf.

metadata

metadata

map_id

the pathway or module id

select_ko

select which ko

only_sig

only show the significant features

box_param

parameters pass to group_box

modulelist

NULL or customized modulelist dataframe, must contain "id","K_num","KOs","Description" columns. Take the 'KOlist' as example, use custom_modulelist.

KO_description

show KO description rather than KO id.

str_width

str_width to wrap

Value

ggplot

Examples

data("reporter_score_res")
plot_features_box(reporter_score_res,
  select_ko = c("K00059", "K00208", "K00647", "K00652", "K00833", "K01012"),
  box_param = list(p_value1 = FALSE, trend_line = TRUE)
)
plot_features_box(reporter_score_res,
  select_ko = "K00059", KO_description = TRUE,
  box_param = list(p_value1 = FALSE, trend_line = TRUE)
)