Welcome to SNPator.
  Next

SNPator (SNP Analysis to Results)


The Very Basics:
SNPator is a web-based environment oriented towards Statistical Genomics Analysis. It focuses on large sets of SNP data such as those generated by high-throughput genotyping facilities.


SNPator has been designed to help users store, handle, retrieve, transform and analyze their data. To that end, SNPator allows you to perform an increasingly large set of operations. They range from format transformations (e.g. creating input files that are ready to use in your favorite analysis software) and quality controls to complex Statistical Genomics calculations such as association tests or haplotype inference.


In some cases, SNPator uses some algorithms written from scratch in PHP or R, in other cases, calculations are performed by standard software packages, such as Arlequin (Scheneider et al. 2000) or Phase (Stephens et al. 2001; Stephens and Donnelly 2003), running in dedicated servers. Of course, we only run software on a strictly legal basis and in strict agreement with the license terms. For a package to be supported by SNPator it needs to be free for non-commercial use.


The Credits:
The development of SNPator has been funded by Genoma España within the CeGen (Centro Nacional de Genotipado) project.


As a part of CeGen's Central Node, located in the Universitat Pompeu Fabra (UPF, Barcelona), CeGen's Bioinformatics Division is mainly oriented to provide services for CeGen users. SNPator is designed to that end.


The team building and maintaining SNPator is directed by Arcadi Navarro and currently involves three great people: Carlos Morcillo (Project Manager), Pep Alegre (Senior Programmer) and Ricard Sangrós (Programmer), all of them in the UPF. Francesc Calafell, also in the UPF, works closely with the team.


SNPator also benefits from valuable feedback provided by many of its users. All the people involved in the CeGen project should be thanked. Special credit should be given to Elena Bosch, Ferran Casals, Anna Ferrer and Andrés Moreno in the UPF, and to Mònica Bayés and Rafa de Cid, in the Centre de Regulació Genòmica (CRG, Barcelona), for patiently testing SNPator's functionalities and coming up with brilliant ideas. Jorge Amigo, in the Universidade de Santiago de Compostela (USC, Santiago) provided helpful feedback for the Quality Control processes. Anna González, Joaquín Dopazo, Patricio Traverso and Roger Milne in the Centro Nacional de Investigaciones Oncológicas (CNIO, Madrid) also provided important feedback.


Last, but not least, Jaume Bertranpetit (CeGen's Coordinator) has to be thanked for continually working to keep SNPator alive.


References: