biors 0.0.1

# bio-rs

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Rust tools for validating protein FASTA input and tokenizing it into stable
`protein-20` token ids.

## Features

- FASTA parsing for one protein sequence
- `protein-20` residue validation
- lowercase sequence normalization
- ambiguous residue reporting for `X`, `B`, `Z`, `J`, `U`, and `O`
- invalid residue reporting
- JSON output from the CLI

## Quickstart

Inspect a protein sequence:

```bash
cargo run -p biors -- inspect examples/protein.fasta
```

Tokenize a protein sequence:

```bash
cargo run -p biors -- tokenize examples/protein.fasta
```

Use the Rust library:

```toml
[dependencies]
biors-core = "0.0.1"
```

## Checks

```bash
scripts/check.sh
```

The check suite runs `cargo fmt`, `cargo check`, `cargo test`, and `cargo clippy`
with warnings denied.

## Workspace

```txt
packages/
  rust/
    biors/       CLI
    biors-core/  FASTA parsing and tokenization library
examples/
  protein.fasta
```

## Protein-20

```txt
A C D E F G H I K L M N P Q R S T V W Y
```

Token ids follow that order, starting at `0`.

## License

Dual licensed under MIT OR Apache-2.0.