plot_element_cycle {pctax}

Plot element cycle

Description

Plot element cycle

Usage

plot_element_cycle(
  cycle = "Nitrogen cycle",
  anno_df = NULL,
  only_anno = FALSE,
  cell_fill = NA,
  cell_color = "orange",
  chemical_size = 7,
  chemical_bold = TRUE,
  chemical_color = "black",
  chemical_label = TRUE,
  reaction_width = 1,
  reaction_arrow_size = 4,
  reaction_arrow_closed = TRUE,
  gene_or_ko = "gene",
  gene_size = 3,
  gene_x_offset = 0.3,
  gene_y_offset = 0.15,
  gene_label = TRUE,
  gene_color = NULL,
  gene_bold = TRUE,
  gene_italic = TRUE,
  gene_label_fill = "white"
)

Arguments

cycle

one of c("Carbon cycle","Nitrogen cycle","Phosphorus cycle","Sulfur cycle","Iron cycle")

anno_df

anno_df, columns should contains Gene or KO and Group

only_anno

only show genes in anno_df?

cell_fill

cell fill color

cell_color

cell border color

chemical_size

chemical text size

chemical_bold

chemical text bold

chemical_color

chemical text color

chemical_label

chemical text in geom_label or geom_text?

reaction_width

reaction line width

reaction_arrow_size

reaction arrow size

reaction_arrow_closed

reaction arrow closed?

gene_or_ko

"gene" or "ko"

gene_size

gene text size

gene_x_offset

gene_x_offset

gene_y_offset

gene_y_offset

gene_label

gene text in geom_label or geom_text?

gene_color

gene text color

gene_bold

gene text blod?

gene_italic

gene text italic?

gene_label_fill

gene label fill color

Value

ggplot

Examples

if (requireNamespace("ggforce")) plot_element_cycle()