bel-repository 0.1.2

A utility for loading data from repositories of BEL documents.

A utility for loading data from repositories of BEL documents with PyBEL [1].

Installation

bel_repository can be installed from PyPI with the following command:

$ pip install bel-repository

The latest version can be installed from GitHub with:

$ pip install git+https://github.com/pybel/bel-repository.git

Usage

from typing import Mapping

from bel_repository import BELRepository
from pybel import BELGraph

# Build a repository by giving a folder
bel_repository = BELRepository('/path/to/folder/with/bel/')

# Get a mapping from paths to graphs
graphs: Mapping[str, BELGraph] = bel_repository.get_graphs()

# Get a combine graph
graph: BELGraph = bel_repository.get_graph()

Example BEL Repositories

Each of these repositories has BEL content that can be pip installed:

• https://github.com/cthoyt/selventa-knowledge/

• https://github.com/pharmacome/conib

• https://github.com/hemekg/hemekg

• https://github.com/covid19kg/covid19kg

• https://github.com/neurommsig-epilepsy/neurommsig-epilepsy

More publicly available BEL content can be found in the listing in this blog post.

References

[1]

Hoyt, C. T., et al. (2017). PyBEL: a computational framework for Biological Expression Language. Bioinformatics (Oxford, England), 34(4), 703–704.