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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