Crate rtemis_a3 

rtemis-a3

Rust implementation of the A3 (Amino Acid Annotation) format.

A3 is a structured format for annotating amino acid sequences with site, region, post-translational modification, processing, and variant information.

Quick start

use rtemis_a3::{a3_from_json, a3_to_json};

let json = r#"{
  "$schema": "https://schema.rtemis.org/a3/v1/schema.json",
  "a3_version": "1.0.0",
  "sequence": "MAEPRQ",
  "annotations": { "site": {}, "region": {}, "ptm": {}, "processing": {}, "variant": [] },
  "metadata": { "uniprot_id": "", "description": "", "reference": "", "organism": "" }
}"#;

let a3 = a3_from_json(json).unwrap();
assert_eq!(a3.sequence(), "MAEPRQ");

Module layout

• error — A3Error enum
• types — data model structs and enums
• normalization — pure helpers: sort, deduplicate, overlap check
• validation — two-stage validation (structural then contextual)

Re-exports

pub use error::A3Error;

pub use types::A3;

pub use types::A3_SCHEMA_URI;

pub use types::A3_VERSION;

pub use types::A3Index;

pub use types::Annotations;

pub use types::FlexEntry;

pub use types::Metadata;

pub use types::RegionEntry;

pub use types::SiteEntry;

pub use types::VariantRecord;

pub use validation::validate;

Modules

error

Error types for the rtemis-a3 library.

normalization

Pure normalization helpers.

types

Data model for the A3 format.

validation

Two-stage A3 validation.

Functions

a3_from_json

Parse and validate an A3 JSON string.

a3_to_json

Serialize a validated A3 to a JSON string.

residue_at

Return the amino acid character at a 1-based position.

variants_at

Return all variant records at a 1-based position.