biobear -- python package with minimal dependencies for bioinformatic file parsing and querying using rust and polars as the backend

• biobear

  3 120 9.2 Rust

  Work with bioinformatic files using Arrow, Polars, and/or DuckDB

  

Last time I'll try, but again you aren't understanding things and with all due respect seem to be stuck in the past. It works fine on Windows w/o maturin, but you're so keen to say something w/o understanding you're missing important details... look again and then look where the other job failed... https://github.com/wheretrue/biobear/actions/runs/4791174939/jobs/8521250054... if you're having issues with it please file an issue on github.

• cramino

  1 110 7.7 Rust

  A *fast* tool for BAM/CRAM quality evaluation, intended for long reads

What do you see as the use case for this, specifically as it relates to the BAM reading? I've used pysam to read and iterate bamfiles to generate custom summary reports but this can be very slow with large files with many records. I know there are some things written in rust that show significant speed improvements (for example a tool I used nanostat was partially rewritten as cramino and purports to be much faster).

• WorkOS

  workos.com sponsored

  The modern identity platform for B2B SaaS. The APIs are flexible and easy-to-use, supporting authentication, user identity, and complex enterprise features like SSO and SCIM provisioning.

  

• adam

  3 967 6.1 Scala

  ADAM is a genomics analysis platform with specialized file formats built using Apache Avro, Apache Spark, and Apache Parquet. Apache 2 licensed.

  

FYI: ADAM seems to do that

Suggest a related project