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. 2014 Dec 30;10:41. doi: 10.1186/s13007-014-0041-7

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© Etherington, Monaghan et al.; licensee BioMed Central. 2014

This is an Open Access article distributed under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by/4.0), which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly credited. The Creative Commons Public Domain Dedication waiver (http://creativecommons.org/publicdomain/zero/1.0/) applies to the data made available in this article, unless otherwise stated.

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Screen-shot of the CandiSNP web application. CandiSNP is openly accessible online at http://candisnp.tsl.ac.uk. The application is laid out so users can make their way through the application in numbered steps. Users choose which genome they would like to use for comparison (the program currently supports Arabidopsis, rice, tomato, grape, maize and soybean genomes). The option of filtering SNPs concentrated around centromeres is also provided. Users then upload their SNP data file, indicate their preferred allele frequency cut-off, and choose from a number of different palettes for SNP visualization.