aa-similarity

Usage

Add the following to your Cargo.toml

[dependencies]
aa-similarity = "0.1.0"

Examples

use aa_similarity::{Blosum65, Similarity, AminoAcid};

assert_eq!(
    Blosum65::similarity(
        AminoAcid::GlutamicAcid,
        AminoAcid::AsparticAcid
    ),
    2
);

aa-similarity re-exports AminoAcid from aa-name. Amino acids from an alignment can be converted from chars or string like so:

use aa_similarity::{Blosum62, Similarity, AminoAcid};

let ala = AminoAcid::try_from('A')?;
let tyr = AminoAcid::try_from('Y')?;

assert_eq!(Blosum62::similarity(ala, tyr), -2);

See: aa-name.

Supported matrices

Source: ftp://ftp.ncbi.nih.gov/blast/matrices/

• Blosum30
• Blosum35
• Blosum40
• Blosum45
• Blosum50
• Blosum55
• Blosum60
• Blosum62
• Blosum65
• Blosum70
• Blosum75
• Blosum80
• Blosum85
• Blosum90
• Blosum100
• Blosumn
• Dayhoff
• Identity
• Pam10
• Pam20
• Pam30
• Pam40
• Pam50
• Pam60
• Pam70
• Pam80
• Pam90
• Pam100
• Pam110
• Pam120
• Pam130
• Pam140
• Pam150
• Pam160
• Pam170
• Pam180
• Pam190
• Pam200
• Pam210
• Pam220
• Pam230
• Pam240
• Pam250
• Pam260
• Pam270
• Pam280
• Pam290
• Pam300
• Pam310
• Pam320
• Pam330
• Pam340
• Pam350
• Pam360
• Pam370
• Pam380
• Pam390
• Pam400
• Pam410
• Pam420
• Pam430
• Pam440
• Pam450
• Pam460
• Pam470
• Pam480
• Pam490
• Pam500

Contributing

The project is maintained by Jean Manguy. Please submit a bug report or a feature request on the Github issues page.

License

aa-similarity is distributed under the terms of both the MIT license and the Apache License (Version 2.0).

See LICENSE-APACHE and LICENSE-MIT for details.