Note: This package no longer includes the SBML and COBRA JSON importers.
The SBML and COBRA JSON importers have been merged into the main PSAMM
package and the import commands (psamm-import and psamm-import-bigg)
are now available from the PSAMM package.
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.
The PSAMM Excel model importers in this repository is a collection of tools that allow metabolic models to be converted from model-specific Excel formats to the internal YAML-based format used by PSAMM.
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.
This package provides additional Excel format importers that are manually
designed to load a specific model correctly, so only a limited set of Excel
models can be loaded. After installing this package, the Excel importers will
become available from psamm-import. Use the following command to see a
list of models that can be imported:
$ psamm-import listPlease see the main documentation for PSAMM that is available at Read the Docs.
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.