This Python module provides classes that encapsulate information provided by the BRENDA database and a parser that generates relevant content from the text file that can be downloaded for free.
| Author: | Moritz Emanuel Beber |
|---|---|
| License: | Please see the LICENSE.rst file distributed with this module. |
- Parser no longer hick-ups on empty lines, continued lines not starting with a tab, and other format breaking content.
- Parser now prints progress to stdout.
- Soon, support for the SOAP interface will be added.
- If desired, a setup script could be added.
If you want to use this module outside its directory, you will have to add it to your PYTHONPATH environment variable (unix).
>>> from brenda import BRENDAParser
>>> with BRENDAParser("brenda_download.txt") as bp:
... content = bp.parse()The method parse returns a dictionary with all enzymes that were parsed. Every key in the dictionary is a string representing an EC number starting form the 6 general classes down to the individual enzymes. The values in the dictionary are always lists, as an example:
>>> len(content["1"])
1348
>>> len(content["1.1.1.1"])
1The API changed slightly.
There is one additional key "file_encoding" which contains the argument used for the parser when reading the file.