A wraper around the KEGG RESTful API
Project description
This package allows the enrichment of BEL networks with KEGG information by wrapping its RESTful API. Furthermore, it is integrated in the ComPath environment for pathway database comparison.
Installation 
bio2bel_kegg can be installed easily from PyPI with the following code in your favorite terminal:
$ python3 -m pip install bio2bel_keggor from the latest code on GitHub with:
$ python3 -m pip install git+https://github.com/bio2bel/kegg.git@masterSetup
KEGG can be downloaded and populated from either the Python REPL or the automatically installed command line utility.
The following resources will be automatically installed and loaded in order to fully populate the tables of the database:
Python REPL
>>> import bio2bel_kegg
>>> kegg_manager = bio2bel_kegg.Manager()
>>> kegg_manager.populate()Command Line Utility
bio2bel_kegg populateOther Command Line Utilities
Run an admin site for simple querying and exploration
python3 -m bio2bel_kegg web(http://localhost:5000/admin/)Export gene sets for programmatic use
python3 -m bio2bel_kegg export
Citation
Kanehisa, Furumichi, M., Tanabe, M., Sato, Y., and Morishima, K.; KEGG: new perspectives on genomes, pathways, diseases and drugs. Nucleic Acids Res. 45, D353-D361 (2017).
Kanehisa, M., Sato, Y., Kawashima, M., Furumichi, M., and Tanabe, M.; KEGG as a reference resource for gene and protein annotation. Nucleic Acids Res. 44, D457-D462 (2016).
Kanehisa, M. and Goto, S.; KEGG: Kyoto Encyclopedia of Genes and Genomes. Nucleic Acids Res. 28, 27-30 (2000).
Release history Release notifications | RSS feed
Download files
Download the file for your platform. If you're not sure which to choose, learn more about installing packages.
Source Distribution
File details
Details for the file bio2bel_kegg-0.2.5.tar.gz.
File metadata
- Download URL: bio2bel_kegg-0.2.5.tar.gz
- Upload date:
- Size: 30.5 kB
- Tags: Source
- Uploaded using Trusted Publishing? No
- Uploaded via: twine/1.11.0 pkginfo/1.4.2 requests/2.19.1 setuptools/39.1.0 requests-toolbelt/0.8.0 tqdm/4.31.1 CPython/3.6.5
File hashes
| Algorithm | Hash digest | |
|---|---|---|
| SHA256 | 8f3459f9724bb36b8280b7bd70f1238aef43dda12ab9b0efe8a07c50fd9f360c |
|
| MD5 | bb44e8e370156a5c58a522ddfdf5e57a |
|
| BLAKE2b-256 | 3c27a2efe68b3e13ec348a9bc0ee89094612e992f5fdf3f246652fd3a0bbfb5d |
