glyrepr 0.11.0

Breaking changes

• get_structure_level() now returns one character scalar for a glyrepr_structure vector instead of one value per element. The vector-wide level is "intact", "partial", "topological", or "basic" according to the combined residue and linkage detail of the non-missing structures in the vector (#42).

New features

• as_glycan_composition() now supports parsing "E" and "L" in the input composition strings as "NeuAc". For example, as_glycan_composition("H5N4F1L1E1") is now correctly parsed as Hex(5)HexNAc(4)Fuc(1)NeuAc(2), with a warning about dropping the sialic acid linkage information (#41).

Minor improvements and bug fixes

• Fix the bug that glycan_composition() and as_glycan_composition() cannot handle duplications in the input. For example, as_glycan_composition("Hex(2)Hex(1)HexNAc(2)") is correctly regared as Hex(3)HexNAc(2) now (#40).
• as_glycan_structure(NA_character_) now creates a missing structure instead of erroring.
• get_structure_level() now ignores missing structures when determining the vector-wide level, and returns NA_character_ for empty or all-missing structure vectors.
• reduce_structure_level() preserves missing structures in output.
• simap() and ``simap_structure()` now skip missing structures like the other smap variants.
• get_mono_type.glyrepr_composition() now ignores missing composition elements and returns NA_character_ for all-NA composition vectors.
• Rewrite the Getting Started vignette for better readability and adopt a calmer tone for all vignettes.