BioVizSeq (version 1.0.0)

motif_plot: motif_plot

Description

Draws multiple rounded rectangle.

Usage

motif_plot(
  motif_loc,
  gene_length,
  the_order = NULL,
  motif_select = NULL,
  shape = "RoundRect",
  show_motif_id = FALSE,
  r = 0.3,
  legend_size = 15,
  motif_color = NULL
)

Value

p

Arguments

motif_loc

A data.frame contains for columuns: ID, motif, start, end.

gene_length

A data.fram of the length of biosequences. Two columns: ID, length.

the_order

A List of Gene ID , One ID Per Line.

motif_select

The motif ID which you want to align with.

shape

RoundRect or Rect.

show_motif_id

Display the name of the motif.

r

The radius of rounded corners.

legend_size

The size of legend.

motif_color

The color set of motif.

Author

Shiqi Zhao

Details

motif_plot() draws multiple rounded rectangle to represent the above elements of biosequences, but not limited to biosequences

Examples

df <- data.frame(
 ID = rep(c("geneA", "geneB", "geneC"), each = 3),
 motif = rep(c("1", "2", "3"), times = 3),
 start = c(1, 3, 6, 1, 6, 10, 10, 7, 17),
 end = c(3, 5, 11, 3, 8, 15, 12, 9, 22)
 )
 
 length_data <- data.frame(
 ID = c("geneA", "geneB", "geneC"),
 length = c(15, 27, 30)
 )
 
 order_data <- c("geneB", "geneA", "geneC")
 
 motif_plot(df, length_data)
 motif_plot(df, length_data, the_order = order_data)