See the microbiorust-py benchmarks with airspeed velocity:
The aim of this crate is to provide Microbiology friendly Rust functions for bioinformatics.
Some concepts with many thanks to Rust-bio
Please see the Roadmap for futher details here
Check out the docs here
To install Rust - please see here Rust install or with Conda
If you would like to contribute please follow the Rust code of conduct
Questions and comments - please join the Discord server :) here
Currently there is functionality for:
1. A Genbank parser and conversions to GFF, protein fasta (faa), DNA sequence (.fna), Gene sequence (.ffn) parser, JSON
2. An Embl parser and conversions to GFF or GBK , .faa, .fna, .ffn, JSON
3. Parsing of multiple sequence alignments
4. Parsing BLAST or Diamond/MMSeq2 output formats in XML/Tabular
5. Calculate many sequence metrics e.g. hydrophobicity, distance measures
6. A demo Heatmap plot with wasm and d3.js
To see more on how to use the project please have a look at usage: here
To use a specific workspace (such as microBioRust, seqmetrics, microbiorust-py or heatmap) clone the project, cd into the specific directory required and build the project from there.
For more background please see https://LCrossman.github.io/microBioRust_details