bedboss
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.
Installation
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
Development
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.
Testing
Requirements test:
To test requirements, install bedboss and run:
bedboss requirements-check
Smoke tests:
Use this docs:
How to generate usage documentation:
Run this command in the root of the repository:
cd scripts
bash update_usage_docs.sh
Release files for bedboss 0.12.0
For a detailed explanation of source distributions (sdists) and built distributions (wheels), please see the package formats documentation.
Source distribution (sdist)
| File | Size | Uploaded | |
|---|---|---|---|
| bedboss-0.12.0.tar.gz | 38.0 MB | Details |
Built distribution (wheel)
| File | Interpreter | ABI | Platform | Reset |
|---|---|---|---|---|
| bedboss-0.12.0-py3-none-any.whl | Python 3 | none | any | Details |
Total release size: 38.1 MB
Release files / bedboss-0.12.0.tar.gz
| Download URL | bedboss-0.12.0.tar.gz |
|---|---|
| Size | 38.0 MB |
| Tags | Source |
|
SHA-256 checksum How to use checksums |
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Transparency logRelease files / bedboss-0.12.0-py3-none-any.whl
| Download URL | bedboss-0.12.0-py3-none-any.whl |
|---|---|
| Size | 158.9 kB |
| Tags | Python 3 |
|
SHA-256 checksum How to use checksums |
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| Upload date | |
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Uploaded using Trusted Publishing? What is trusted publishing? |
Yes |
| Uploaded via |
twine/7.0.0 CPython/3.13.14
|
Provenance
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