pav_cluster: pav_cluster

In xiaonui/vPan: An R package to analyze and visualize PAV results from pan-genome of "map-to-pan" strategy.

Description

pav_cluster

Usage

pav_cluster(
  pav_obj,
  cluster_distance = "euclidean",
  cluster_method = "complete",
  add_phen_info = NULL,
  phen_info_color_list = NULL,
  sample_name_size = 4,
  mult = 0.1,
  legend_side = "right",
  legend_title_size = NULL,
  legend_text_size = NULL
)

Arguments

pav_obj	A PAV object.
cluster_distance	Method to measure distance, pass to dist.
cluster_method	Method to perform hierarchical clustering, pass to hclust.
add_phen_info	A character string of 'phen_info' names.
phen_info_color_list	A list contains named vector of colors for 'phen_info' annotation. e.g. list(gender = c("Male" = "green", "Female" = "red"))
sample_name_size	The size of labels.
mult	A numebr of multiplicative range expansion factors.
legend_side	The position of legend ("top", "bottom", "right", "left").
legend_title_size	The size of legend title.
legend_text_size	The size of legend item labels.

xiaonui/vPan documentation built on Dec. 23, 2021, 6:17 p.m.