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. 2015 Jun 3;43(Web Server issue):W295–W300. doi: 10.1093/nar/gkv351

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© The Author(s) 2015. Published by Oxford University Press on behalf of Nucleic Acids Research.

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 reuse, distribution, and reproduction in any medium, provided the original work is properly cited.

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Figure 3. — GWAS analyses in SNiPlay. (A) Data control: first step controls data concordance and outputs some statistics about genotypic (MAF distribution) and phenotypic (phenotypic values distribution) datasets. (B) QQ plot shows the expected distribution of association test statistics (X-axis) compared to the observed values (Y-axis). (C) Result interface displays an interactive Manhattan plot color-coded by chromosome that represents the association P-values between markers and the trait being measured. It supports zooming, which can be achieved by a ‘click, hold and drag mouse’ action on the region of interest.