Metadata-Version: 2.4
Name: bifrost_bridge
Version: 0.9.1
Summary: Normalize bioinformatics QC tool outputs into pipeline-friendly TSV summaries
Project-URL: Homepage, https://github.com/ssi-dk/bifrost_bridge
Project-URL: Repository, https://github.com/ssi-dk/bifrost_bridge
Project-URL: Issues, https://github.com/ssi-dk/bifrost_bridge/issues
Author: SSI-DK
License: MIT
License-File: LICENSE
Classifier: Intended Audience :: Science/Research
Classifier: License :: OSI Approved :: MIT License
Classifier: Operating System :: OS Independent
Classifier: Programming Language :: Python :: 3.11
Classifier: Programming Language :: Python :: 3.12
Classifier: Programming Language :: Python :: 3.13
Classifier: Programming Language :: Python :: 3.14
Classifier: Topic :: Scientific/Engineering :: Bio-Informatics
Requires-Python: <3.15,>=3.11
Requires-Dist: pandas<4,>=3.0.3
Requires-Dist: pyyaml<7,>=6.0.3
Provides-Extra: dev
Requires-Dist: pytest-cov<8,>=7.1.0; extra == 'dev'
Requires-Dist: pytest<10,>=9.1.0; extra == 'dev'
Requires-Dist: ruff<0.16,>=0.15.18; extra == 'dev'
Provides-Extra: test
Requires-Dist: pytest-cov<8,>=7.1.0; extra == 'test'
Requires-Dist: pytest<10,>=9.1.0; extra == 'test'
Description-Content-Type: text/markdown

# bifrost_bridge

`bifrost_bridge` converts outputs from multiple bioinformatics QC tools into normalized TSV files and can combine them into a single QC table.

## Development

```sh
python3 -m venv .venv
source .venv/bin/activate
pip install -e .[dev]
pytest
```

## CLI

Installed commands:

- `bridge_mlst`
- `bridge_fastp`
- `bridge_quast`
- `bridge_plasmidfinder`
- `bridge_amrfinderplus`
- `bridge_bracken`
- `bridge_pmlst`
- `bridge_rmlst`
- `bridge_shovill`
- `bridge_ssiamb`
- `bridge_qc`

Use `--help` on each command for arguments.
