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polars-bio

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About polars-bio

P

polars-bio

Performs genomic interval overlap, nearest, merge, coverage

polars-bio is an agent skill for genomic interval arithmetic and bioinformatics file input and output, using Polars and DataFusion. It covers overlap, nearest-neighbour, merge, coverage, complement and subtraction operations on Polars DataFrames, and reading or writing BED, VCF, BCF, BAM and CRAM files. The skill targets polars-bio 0.36.0, tested with Polars 1.44.2 on Python 3.13. The upstream package requires Polars 1.37.1 or newer, PyArrow from 23.0.1 up to but not including 25, DataFusion from 53 up to but not including 54, and polars-config-meta from 0.3.2 up to but not including 1. The skill advises keeping this environment separate from packages that need incompatible Arrow or DataFusion releases. It recommends checking new releases against the official release notes and package requirements. The examples that name files are templates, so you must substitute your own files and check their schemas. The synthetic interval example and small local format round-trip tests were run during the review. A pandas-compatible option is available if you install pandas 3 or newer alongside it.

View polars-bioAll AI Skills apps
Price
Free
Made by
k-dense-ai
Category
AI Skills
Website
github.com/k-dense-ai/scientific-agent-skills/polars-bio