bedboss
Advanced tools
Documentation: https://docs.bedbase.org/bedboss
Source Code: https://github.com/databio/bedboss
BEDboss is a command-line management tool for BEDbase. It contains pipelines that filters, standardizes, and calculates statistics for genomic interval data, functions that enters the results into a BEDbase database, deletes bed and bedsets from the database, and indexes the data to qdrant.
To install bedboss use this command:
pip install bedboss
or install the latest version from the GitHub repository:
pip install git+https://github.com/databio/bedboss.git
For development, you should install all the dependencies, create a virtual environment, and work on the local database. The workflow is described in the development documentation.
To test requirements, install bedboss and run:
bedboss requirements-check
Use this docs:
Run this command in the root of the repository:
cd scripts
bash update_usage_docs.sh
FAQs
Pipelines for genomic region file to produce bed files, and its statistics
We found that bedboss demonstrated a healthy version release cadence and project activity because the last version was released less than a year ago. It has 3 open source maintainers collaborating on the project.
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