shogen2

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

Release history Release notifications | RSS feed

This version

1.1.1

Mar 6, 2014

1.1

Mar 4, 2014

1.0

Jan 16, 2014

Download files

Download the file for your platform. If you're not sure which to choose, learn more about installing packages.

Source Distribution

shogen2-1.1.1.tar.gz (6.9 kB view details)

Uploaded Mar 6, 2014 Source

File details

Details for the file shogen2-1.1.1.tar.gz.

File metadata

Download URL: shogen2-1.1.1.tar.gz
Upload date: Mar 6, 2014
Size: 6.9 kB
Tags: Source
Uploaded using Trusted Publishing? No

File hashes

Hashes for shogen2-1.1.1.tar.gz
Algorithm	Hash digest
SHA256	`20f5d2d0e158f09c8be17b7ecb1a9ad392eb8e23cb6cf6ea344e0c3aad5a5e3b`
MD5	`370a8def97252525d34232de835dc095`
BLAKE2b-256	`14e3f6201b239219ce6122200504e04c2243016b9cc54949edf713f58050bf27`