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Finding shortest genome segments that regulate metabolic pathways

Project description

Installation

You can install shogen2 by running:

$ pip install shogen2

Usage

Typical usage is:

$ shogen2.py [options] genomefile metabolismfile.sbml 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.sbml catalyze.txt queries.txt

Project details


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Files for shogen2, version 1.1.1
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