Access Individual Glycan Structures — get_structure

Extract individual glycan structure graphs from a glycan structure vector. A structure with floating parts is returned as one annotated, weakly disconnected igraph: its main tree and floating components share the graph, and the floating_parts graph attribute records each component's node indices, virtual attachment, and candidate parents. See glycan_structure() for the metadata schema. A structure with floating substituents carries a floating_substituents graph attribute containing their tokens and candidate parent indices.

Usage

get_structure_graphs(x, return_list = NULL)

Arguments

x: A glycan structure vector.
return_list: If TRUE, always returns a list. If FALSE and x has a length of 1, return the igraph object directly. If not provided (default), FALSE when x has a length of 1 and TRUE otherwise, including for an empty vector.

Value

A list of igraph objects or an igraph object directly (see return_list parameter).

Examples

structures <- c(o_glycan_core_1(), n_glycan_core())
get_structure_graphs(structures)
#> [[1]]
#> IGRAPH 54e0799 DN-- 2 1 -- 
#> + attr: anomer (g/c), alditol (g/l), name (v/c), mono (v/c), sub (v/c),
#> | linkage (e/c)
#> + edge from 54e0799 (vertex names):
#> [1] 2->1
#> 
#> [[2]]
#> IGRAPH 4c4b6f8 DN-- 5 4 -- 
#> + attr: anomer (g/c), alditol (g/l), name (v/c), mono (v/c), sub (v/c),
#> | linkage (e/c)
#> + edges from 4c4b6f8 (vertex names):
#> [1] 3->1 3->2 4->3 5->4
#> 
get_structure_graphs(structures)
#> [[1]]
#> IGRAPH 54e0799 DN-- 2 1 -- 
#> + attr: anomer (g/c), alditol (g/l), name (v/c), mono (v/c), sub (v/c),
#> | linkage (e/c)
#> + edge from 54e0799 (vertex names):
#> [1] 2->1
#> 
#> [[2]]
#> IGRAPH 4c4b6f8 DN-- 5 4 -- 
#> + attr: anomer (g/c), alditol (g/l), name (v/c), mono (v/c), sub (v/c),
#> | linkage (e/c)
#> + edges from 4c4b6f8 (vertex names):
#> [1] 3->1 3->2 4->3 5->4
#>