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All Projects → zhanglab → psamm

zhanglab / psamm

Licence: GPL-3.0 license
Curation and analysis of metabolic models

Programming Languages

python
139335 projects - #7 most used programming language

Labels

bioinformaticsmetabolic-modelsmetabolic-network

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PSAMM metabolic modeling tools

Build Status Documentation Status Package Status Test Coverage Status Digital Object Identifier

PSAMM is an open source software that is designed for the curation and analysis of metabolic models. It supports model version tracking, model annotation, data integration, data parsing and formatting, consistency checking, automatic gap filling, and model simulations.

See NEWS for information on recent changes. The master branch tracks the latest release while the develop branch is the latest version in development. Please apply any pull requests to the develop branch when creating the pull request.

Install

Use pip to install (it is recommended to use a Virtualenv):

$ pip install psamm

Documentation

The documentation for PSAMM is available at Read the Docs.

Citing PSAMM

If you use PSAMM in a publication, please cite:

Steffensen JL, Dufault-Thompson K, Zhang Y. PSAMM: A Portable System for the Analysis of Metabolic Models. PLOS Comput Biol. Public Library of Science; 2016;12: e1004732. 10.1371/journal.pcbi.1004732.

Software license

This program is free software: you can redistribute it and/or modify it under the terms of the GNU General Public License as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later version.

This program is distributed in the hope that it will be useful, but WITHOUT ANY WARRANTY; without even the implied warranty of MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the GNU General Public License for more details.

You should have received a copy of the GNU General Public License along with this program. If not, see <http://www.gnu.org/licenses/>.

See LICENSE.

Note that the project description data, including the texts, logos, images, and/or trademarks, for each open source project belongs to its rightful owner. If you wish to add or remove any projects, please contact us at [email protected].