Finding shortest genome segments that regulate metabolic pathways.
Project description
Installation
You can install shogen by running:
$ pip --user install shogen
Usage
Typical usage is:
$ shogen.py [options] genomefile metabolismfile catalysationfile queries Options: -h, --help show this help message and exit -k K, --k=K Number of ranked shortest genome segments (Default to 5) -l L, --l=L maximum length of a genome segment (Default to 200)
Samples
Sample files for finding functional gene units in e. coli are available here:: genome.txt metabolism.txt catalyze.txt queries.txt
Project details
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