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Read specialized NGS formats as data frames in R, Python, and more.

Home Page: https://lifeinbytes.substack.com/p/breaking-out-of-bioinformatic-data-silos

License: Apache License 2.0

Rust 93.91% R 0.52% C 0.16% Python 5.41%
apache-arrow bioinformatics data-science dataframe fair-data genomics multiomics ngs pandas polars

oxbow's Introduction

oxbow

DOI

Read specialized bioinformatic file formats as data frames in R, Python, and more.

File formats create a lot of friction for computational biologists. Oxbow is a data unification layer that aims to improve data accessibility and ease of high-performance analytics.

Data I/O is handled in Rust with features exposed to Python and R via Apache Arrow.

Learn more in our recent blog post.

Docs

Read the latest Python and Rust API documentation.

Contributing

Want to contribute? Join us!

Development

The oxbow project is split into separate Rust, Python, and R packages. You can download sample data by following these instructions.

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