BioVizSeq (version 1.0.3)

combi_p: combi_p

Description

Get ggplot2 files to facilitate free combination in patchwork

Usage

combi_p(
  tree_path,
  gff_path = NULL,
  meme_path = NULL,
  pfam_path = NULL,
  cdd_path = NULL,
  fa_path = NULL,
  smart_path = FALSE,
  plantcare_path = NULL,
  promoter_length = NULL,
  renamefile = NULL,
  groupfile = NULL,
  shape = "RoundRect",
  r = 0.3,
  legend_size = 6
)

Value

list

Arguments

tree_path

The path of tree file (.newick).

gff_path

The path of .gff/gtf file.

meme_path

The path of .meme/mast file.

pfam_path

The path of pfam result file (.tsv).

cdd_path

The path of cdd result file (.txt).

fa_path

The path of protein file (.fa/fasta).

smart_path

Do SMART or not. (TRUE or FALSE)

plantcare_path

The path of plantcare file (.tab).

promoter_length

The length of promoter.

renamefile

Rename file. Two cols: new_name and old_name.

groupfile

Group information. Two cols: label and Group.

shape

RoundRect or Rect.

r

The radius of rounded corners.

legend_size

The size of legend.

Author

Shiqi Zhao

Examples

tree_path <- system.file("extdata", "idpep.nwk", package = "BioVizSeq")
plot_file <- combi_p(tree_path)