Top 3 Rust Genomic Projects

krust

5 29 5.4 Rust

counts k-mers, written in rust

Project mention: Feedback on a K-mer counter written in Rust | /r/learnbioinformatics | 2023-06-04

I’m not a bioinformatician, I’m just a software engineer. I made krust because I wanted to learn Rust. I’ve kept working on it and I’m surprised it has as many as 22 stars on GitHub, from people who seem to be in bioinformatics for the most part. So it seems like it’s somewhat interesting/useful. But I don’t know what would make this more/less useful for a specialist.

spacepile

1 13 4.9 Rust

convert reads from repeated measures of same piece of DNA into spaced matricies for deep learners.

Project mention: dna_parser : A Python package written in Rust to encode DNA sequences for machine learning. | /r/rust | 2023-05-17

I know very little about machine learning encoding but saw a somewhat similar project here https://github.com/brentp/spacepile

InfluxDB

www.influxdata.com sponsored

Power Real-Time Data Analytics at Scale. Get real-time insights from all types of time series data with InfluxDB. Ingest, query, and analyze billions of data points in real-time with unbounded cardinality.
dna_parser

1 1 7.1 Rust

A Python module written in rust to encode DNA sequences for machine learning

Project mention: dna_parser : A Python package written in Rust to encode DNA sequences for machine learning. | /r/rust | 2023-05-17

I started to work on a Python library written in Rust to encode DNA sequences (stored in the FASTA format) for machine learning applications. I recently released a first version even if the project is in a very early stage and things will be changed/upgraded/improved. dna_parser 0.1 can be easily installed with pip: pip install dna-parser

NOTE: The open source projects on this list are ordered by number of github stars. The number of mentions indicates repo mentiontions in the last 12 Months or since we started tracking (Dec 2020).