User Manual
From GBWiki
Phenyx User Manual
There are various resources that help understanding how to use Phenyx. A general User Manual is available as html or pdf formats.
It is augmented by a number of documents available in the current wiki (gbwiki.genebio.com). Topics include:
- Quantitation
- DB Manager
- Extended PTM Search
- Interaction with Proxeon's ProteinCenter
- Scaffold Extended Output
- Import Results from Other Tools
- Export and Process Results
- How to use phenyx for cross-linked peptides
A FAQ is available here
A troubleshooting is available here
A tutorial movie is available here
Dedicated resources are also available for admin purposes. You can find them either in this wiki or in the perl script themselves.
Other questions can be asked to phenyx@genebio.com
How to cite Phenyx?
Jacques Colinge, Alexandre Masselot, Isabelle Cusin, Eve Mahé, Anne Niknejad, Guilaine Argoud-Puy, Samia Reffas, N Bederr, Anne Gleizes, Pierre-Andre Rey, Lydie Bougueleret. High performance peptide identification by tandem mass spectrometry allows reliable automatic data processing in proteomics. Proteomics 2004, 1977-84
PMID: 15221758
and
Geneva Bioinformatics (GeneBio) SA, Geneva, Switzerland
