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SNiPlay

Website URL: 
http://sniplay.southgreen.fr

SNiPlay is a web-based tool for SNP and polymorphism analysis. From sequencing traces, alignment or allelic data given as input, it detects or extracts SNP and insertion/deletion events. In a second step, it sends sequences and allelic data into an integrative pipeline: 

  • Mapping and annotation (genomic position, intron/exoni, synonym/non-synonym)
  • Haplotype reconstruction
  • Haplotype network
  • Linkage disequilibrium
  • Diversity analysis

SNiPlay also integrates a database for SNP exploration.

Referent(s): 
Alexis Dereeper
Partner(s): 
IRD, INRA, CIRAD
Funding: 

ANR DLVitis (2009), ANR GnpAsso (2012)

Publication(s): 
Dereeper A, Nicolas S, Le Cunff L, Bacilieri R, Doligez A, Peros J-, et al. SNiPlay: a web-based tool for detection, management and analysis of SNPs. Application to grapevine diversity projects. BMC Bioinformatics. 2011;12:134. Abstract
Peralta M, Combes M-, Cenci A, Lashermes P, Dereeper A. SNiPloid: A Utility to Exploit High-Throughput SNP Data Derived from RNA-Seq in Allopolyploid Species. International Journal of Plant Genomics. 2013;2013. Abstract
Dereeper A, Homa F, Andres G, Sempéré G, Sarah G, Hueber Y, et al. SNiPlay3: a web-based application for exploration and large scale analyses of genomic variations. Nucleic Acids Research. 2015.