plot_features_box: Plot features boxplot

In ReporterScore: Generalized Reporter Score-Based Enrichment Analysis for Omics Data

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)
)

ReporterScore documentation built on Sept. 11, 2024, 6:44 p.m.