plot_waterfall: Plots a bar graph depicting the hazard ratio ( on log10 scale...
In Benjamin-Vincent-Lab/binfotron: Binfotron Bioinformatics Analysis Tools Suite

plot_waterfall

R Documentation

Plots a bar graph depicting the hazard ratio ( on log10 scale ) by feature

Description

Intended to aid in selection of significant features by displaying the hazard ratios for each feature ( ordered by hazard ratio ) with optional color coding for various Q-Value significance levels

Usage

plot_waterfall(
  plot_df,
  colors_clm = NA,
  features_clm = "Independant",
  fill_scheme = scale_fill_viridis_d(option = "rocket", begin = 0.8, end = 0.3),
  gg_add_on = theme_minimal(),
  hr_clm = "Hazard_Ratio",
  lab_color = "Q-Value",
  lab_x = "Features",
  lab_y = "Hazard Ratio ( Log10 )",
  log10_scale = TRUE,
  output_path = NA,
  plot_title = title_prefix,
  sig_clm = "qValue",
  sig_threshold = NA,
  size_height = 5.5,
  size_width = 5
)

Arguments

`plot_df`	Dataframe containing at a minimum hazard ratios and features
`colors_clm`	column name in plot_df of categorical variable to use for coloring of bars ( typically representing significance levels )
`features_clm`	column name in plot_df corresponding to features
`fill_scheme`	ggplot function to specify discrete fills
`gg_add_on`	ggplot elements to add on to plot. Defaults to `theme_minimal()`
`hr_clm`	column name in plot_df corresponding to hazard ratios
`lab_color`	String for labeling color legend
`lab_x`	String for labeling x axis
`lab_y`	String for labeling y axis
`log10_scale`	Boolean to indicate whether or not the y axis will be shown on log10 scale.
`output_path`	Output path for plot
`plot_title`	String for plot title
`sig_clm`	column name in plot_df corresponding to q-values, only used if sig_threshold is also set
`sig_threshold`	double representing the maximum q-value to plot on the graph. Observations with higher qvalues will be dropped from the data
`size_height`	Numeric to specify plot height
`size_width`	Numeric to specify plot width