Perform genomic interval arithmetic on Polars DataFrames with SQL integration.
npx skills add https://github.com/JosephWoodall/noosphere --skill polars-bio
Please help me install this Agent Skill. Skill: polars-bio Source: https://github.com/JosephWoodall/noosphere/tree/main/.agent/skills/polars-bio Command: npx skills add https://github.com/JosephWoodall/noosphere --skill polars-bio
polars-bio provides a high-performance toolkit for genomic interval arithmetic and bioinformatics file I/O on Polars DataFrames, enabling fast overlap, nearest, merge, coverage, and related analyses with streaming and cloud-native capabilities to scale to large datasets.
Overlap two interval datasets with pb.overlap and collect the results.
High-intent search queries and answers about installing and using this skill.
Genomic interval overlap on BED and VCF files is performed using the pb.overlap function, which leverages Polars DataFrames and DataFusion to deliver fast, scalable arithmetic on large datasets.
Yes, you can read and write bioinformatics files directly from S3, GCS, and Azure using cross-cloud I/O support, enabling cloud-native bioinformatics workflows without local downloads.
For datasets larger than memory, genomic interval analytics can be run using out-of-core processing with scan_* functions, enabling streaming computation to scale to large bioinformatics datasets efficiently.
Yes, it supports SQL data processing by registering bioinformatics files as SQL tables and querying them with DataFusion SQL, allowing you to combine genomic intervals with Polars pipelines.
Per-base or block depth from BAM and CRAM files is computed using the pb.depth function, delivering fast pileup analytics directly within the Polars DataFrame environment.
Besides overlap, available genomic interval operations include nearest, merge, cluster, coverage, complement, and subtract, providing comprehensive interval arithmetic for BED, BAM, and GFF data.
Zeyuyang-0420Process genomic interval data and bioinformatics file formats with Polars.
RamanEbrahimiPerform genomic interval operations and bioinformatics file I/O on Polars DataFrames.
swaruplabPerform genomic interval operations and stream BED/VCF/BAM/GFF files with Polars and DataFusion.
Estrella-231Perform genomic interval operations and bioinformatics file I/O on Polars DataFrames.
