Struct Tree

pub struct Tree {
    pub nodes: HashMap<i64, Node>,
    pub children: HashMap<i64, HashSet<i64>>,
    /* private fields */
}

A taxonomy tree

Fields

nodes: HashMap<i64, Node>

children: HashMap<i64, HashSet<i64>>

Implementations

impl Tree

pub fn new(root_id: i64, nodes: &[Node]) -> Tree

Create a new Tree containing the given nodes.

pub fn add_nodes(&mut self, nodes: &[Node])

Add the given nodes to the Tree.

pub fn mark_nodes(&mut self, taxids: &[i64])

Mark the nodes with this IDs.

pub fn set_format_string(&mut self, format_string: String)

Set the format string for all nodes.

pub fn simplify(&mut self)

Simplify the tree by removing all nodes that have only one child and are not marked.

pub fn to_newick(&self) -> String

Return a Newick representation of the tree. If the root has only one child, we remove the root from the resulting tree.

Trait Implementations

impl Display for Tree

fn fmt(&self, f: &mut Formatter<'_>) -> Result

Formats the value using the given formatter.