How to cite

If you publish results obtained in part using SNiPlay, please cite required programs as follows:

Dereeper A, Homa F, Andres G, Sempere G, Sarah G, Hueber Y, Dufayard JF, Ruiz M. SNiPlay3: a web-based application for exploration and large scale analyses of genomic variations.. Nucleic Acids Res. 2015 Jul 1;43(W1) (PubMed)

External tools:
  • VCFtools: Danecek P, Auton A, Abecasis G, Albers CA, Banks E, DePristo MA, Handsaker RE, Lunter G, Marth GT, Sherry ST, McVean G, Durbin R; 1000 Genomes Project Analysis Group. The variant call format and VCFtools. Bioinformatics. 2011 Aug 1;27(15):2156-8. Epub 2007 Jul 25. (PubMed)
  • Admixture: D.H. Alexander, J. Novembre, and K. Lange. Fast model-based estimation of ancestry in unrelated individuals. Genome Research, 19:1655<96>1664, 2009. (PubMed)
  • H. Zhou, D. H. Alexander, and K. Lange. A quasi-Newton method for accelerating the convergence of iterative optimization algorithms. Statistics and Computing, 2009.
  • Phase: Stephens M., Scheet P. Accounting for decay of linkage disequilibrium in haplotype inference and missing-data imputation. Am J Hum Genet. 2005 Mar;76(3):449-62.(PubMed)
  • SeqLib library: De Mita S. 2008. (SeqLib library)
  • Haplophyle: Sarah G., Ruiz M., Perrier X., Billot C. 2007. (Haplophyle)
  • Gevalt: Davidovich O., Kimmel G., Shamir R. GEVALT: An integrated software tool for genotype analysis. BMC Bioinformatics. 2007 Feb 1;8:36. (PubMed)
  • Shape-IT: Delaneau O., Coulonges C, Zagury JF. Shape-IT: new rapid and accurate algorithm for haplotype inference. BMC Bioinformatics. 2008 Dec 16;9:540. (PubMed)
  • Blast: Altschul SF., Madden TL., Schaffer AA., Zhang J., Zhang Z., Miller W., Lipman DJ. Gapped BLAST and PSI-BLAST: a new generation of protein database search programs. Nucleic Acids Res. 1997 Sep 1;25(17):3389-402.(PubMed)
  • Polymorfind: Gaillard S. Foucher F., Pernet A. 2008. (Polymorfind)

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