About
The PD2AF converter is an open-source application designed to enable communication between the Process Description and the Activity Flow languages of the SBGN standard.
The development was initiated within the eTRIKS project as a collaboration between the European Institute for Systems Biology and Medicine in France and the Institute of Cell Biophysics in Russia. The code was developed by Denis Shirshov, a volunteer software developer at the EISBM. The converter and web services are hosted and supported by the Bioinformatics Core of the Luxembourg Centre for Systems Biomedicine within the ELIXIR-LU framework.
Related friendly efforts include CaSQ (Aghamiri et al., 2020, PMID: 32403123), the Newt Editor and the SBGN-ED editor (Vogt et al., 2013, PMID: 24176088).
Availability
The converter is available at https://pd2af.lcsb.uni.lu. The code is available at https://git-r3lab.uni.lu/elixir/pd2af.
Contact
To contribute and discuss the project please use this email address: pd2af@googlegroups.com
Lead developer: Denis Shirshov denis.shirshov@gmail.com
Project coordinator: Alexander Mazein a.mazein@gmail.com
Project Team
Denis Shirshov, Alexander Mazein, Adrien Rougny, Anatoly Sorokin, Ilya Mazein, Vasundra Toure, Irina Balaur, Johann Pellet, Charles Auffray, Ugur Dogrusoz, Marek Ostaszewski, Yohan Jarosz, Christophe Trefois, Reinhard Schneider, Sylvain Soliman, Anna Niarakis
Funding
This work was supported in part by the Innovative Medicines Initiative Joint Undertaking under grant agreement no. IMI 115446 (eTRIKS), resources of which are composed of financial contribution from the European Union’s Seventh Framework Programme (FP7/2007-2013) and EFPIA companies.
Acknowledgements
The converter and web services are hosted and supported by ELIXIR Luxembourg, the Luxembourgish node of ELIXIR.
The PD2AF tool is built on and further develops the logic of the previously published template-based translation from PD to AF (Vogt et al., 2013, doi:10.1186/1752-0509-7-115) which is accessible as a functionality of the SBGN-ED add-on of the VANTED editor.
License
The PD2AF tool is available under the GNU General Public License version 3.0 (GPLv3) License.