Plot Association Plot with ggplot — apl

Uses ggplot to plot an Association Plot

Usage

apl_ggplot(
  rows,
  rows_group = NULL,
  cols,
  cols_group = NULL,
  rows_scored = NULL,
  rows_color = "#0066FF",
  rows_high_color = "#FF0000",
  cols_color = "#601A4A",
  cols_high_color = "#EE442F",
  score_color = "rainbow",
  row_labs = FALSE,
  col_labs = FALSE,
  show_score = FALSE,
  show_cols = FALSE,
  show_rows = TRUE
)

Arguments

rows: Row APL-coordinates
rows_group: Row AP-coordinates to highlight
cols: Column AP-coordinates
cols_group: Column AP-coordinates for the group to be highlighted.
rows_scored: Row AP-coordinates of rows above a score cutoff.
rows_color: Color for rows
rows_high_color: Color for rows to be highlighted.
cols_color: Column points color.
cols_high_color: Color for column points to be highlighted..
score_color: Color scheme for row points with a score.
row_labs: Logical. Whether labels for rows indicated by rows_idx should be labeled with text. Default TRUE.
col_labs: Logical. Whether labels for columns indicated by cols_idx shouls be labeled with text. Default FALSE.
show_score: Logical. Whether the S-alpha score should be shown in the plot.
show_cols: Logical. Whether column points should be plotted.
show_rows: Logical. Whether row points should be plotted.

Value

ggplot Association Plot