gg_silva: Plot forest of GSEA terms

In Yutong441/TBdev: Infer a Trophoblast Developmental Trajectory

Description

This function is the backend for rich_forest.

Usage

gg_silva(
  plot_df,
  AP,
  extend_x_neg = 1,
  extend_x_pos = 1,
  ladder_step = 1,
  band_width = 0.3,
  label_shift_ratio = 0.05,
  shrink_ratio = 1,
  nudge_y = 1,
  ...
)

Arguments

extend_x_neg	how much percentage to extend along the left side of the x axis to prevent the gene label text from being cut off.
extend_x_pos	how much percentage to extend along the right side of the x axis to prevent the gene label text from being cut off.
ladder_step	how much should the two bars by separated from each other. Empirically, I did not find this argument useful.
band_width	the thickness of each bar
label_shift_ratio	by what percentage along the x axis to shift the term labels
shrink_ratio	by how much the fontsize of the labels should decrease
nudge_y	by how much the arrow and its labels to shift vertically up from the maximum value along the y axis
...	arguments for sagittae
band_ratio	how much thicker the arrow should be compared to the arrow_thickness field in AP.

Yutong441/TBdev documentation built on Dec. 18, 2021, 8:22 p.m.