GGEbiplot Pattern Explorer

Complete solution to biplot analysis, video game for scientists


Functionality

GGEbiplot functions

Functions for a 4-Way Dataset

Variable-by-Variable Biplot

Association Biplot

Genotype by env. biplot

Genotype by trait biplot

QTL mapping biplot

QTL by environment biplot

Gene expression biplot

Diallel cross data biplot

Host by pathogen biplot

3D-Biplot

Free User-friendly ANOVA

Breeder's Kit

 

 

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GGE biplot publications by users

GGE biplot publications

References on biplot analysis

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Selected Publications of Weikai Yan and collaborators


Books

“The objective (of this book) is to demonstrate the power of this (biplot) graphical analysis and enable other scientists to effectively use the methodology and software to gain more insight into their own data. I believe that Yan and Kang have achieved this objective and that someone who has not used this ordination approach before could do so with this book as their guide....A major advantage of biplot methodology is that it can be applied to any two-way data with multiple entries and multiple attributes in order to obtain a better understanding of the relationships among entries, relationships among attributes, and the interactions between entries and attributes. Hence the material in this book will be of benefit to any scientists working with such data. I believe no other book covers this methodology and software in equivalent depth and breadth.....I have no hesitation in recommending this book to breeders, geneticists, agronomists, ecologists, and to biometricians working with them. The biplot methodology greatly enhances the ability to understand and interpret two-way data and this graphical analysis can be readily implemented with the GGEbiplot software.”  (Cited from Biometrics 59 (2003):735-736, by K. E. Basford)

  • Wallace, D. H. and Yan, W. 1998. Plant Breeding and Whole-system Plant Physiology–Breeding for Maturity, Adaptation, and Yield. CAB International. Wallingford, Oxon, UK.


Journal Papers and Book Chapters (articles are available upon request)

  • Yan, Glover, Kang, 2010: Statistical test of biplot patterns.

  • Yan, W. (2010). "Optimum use of biplots in the analysis of multi−environment variety trial data.", Acta Agronomica Sinica, 36(11), pp. 1−16. DOI: 10.3724⁄SP.J.1006.2010.00000. 双标图分析在农作物品种多点试验中的应用

  • Yan, W. and Holland, J.B. 2010.. "A heritability−adjusted GGE biplot for test environment evaluation.", Euphytica, 171(3), pp. 355−369. DOI: 10.1007⁄s10681−009−0030−5.

  • Weikai Yan, Judith Frégeau-Reid, Denis Pageau, Richard Martin, Jennifer Mitchell-Fetch, Mark Etienne, John Rowsell, Peter Scott, Mike Price, Brad de Haan, Allan Cummiskey, Julie Lajeunesse, Julie Durand and Ellen Sparry. 2010 Identifying Essential Test Locations for Oat Breeding in Eastern Canada. Crop Science 2010 50: 2: 504-515 doi:10.2135/cropsci2009.03.0133. Full Text (PDF)

  • Yan, W and J. Fregeau-Reid. 2008. Breeding line selection based on multiple traits. Crop Sci.48:417-423. [Abs

  • Yan, W., Tinker, N. A, 2007. DUDE: a user-friendly crop information system. Agron. J. 99: 1029-1033.

  • Yan, Molnar, Fregeau-Reid, McElroy, Tinker. 2007. Trait associations of oats in response to the environment. Journal of Crop Improvement. 20:1-29.

  • Yan, W., Manjit S. Kang, Baoluo Ma, Sheila Woods, and Paul L. Cornelius. 2007. GGE Biplot vs. AMMI Analysis of Genotype-by-Environment Data. Crop Sci 47: 643-653t]

  • Yan, W., and N. A. Tinker. 2006. Biplot analysis of multi-environment trial data: principles and applications. Can. J. Plant Sci. 86: 623–645.

  • Yan, W., and N. A. Tinker. 2005. An integrated system of biplot analysis for displaying, interpreting, and exploring genotype‑by‑environment interactions. Crop Science 45: 1004-1016. [Abstract]

  • Yan, W., N. A. Tinker, and D. Falk. 2005. QTL identification, mega-environment classification, and strategy development for marker-based selection using biplots. J. Crop Improvement 14 (1/2): 299 - 324.

  • Yan, W and N. A. Tinker. 2005. A biplot approach to the investigation of qtl-by-environment patterns. Molecular Breeding 15:31-43.

  • Ma, B. L., W. Yan, L. M. Dwyer, J. Frégeau-Reid, H. D. Voldeng, Y. Dion, and H. Nass. 2004. Graphic Analysis of Genotype, Environment, Nitrogen Fertilizer and Their Interactions on Spring Wheat Yield. Agron J 96: 169-180. [Abstract]

  • Sun Joo Lee, W. Yan, Joung Kuk Ahn, Ill Min Chung 2003. Effects of year, site, genotype, and their interactions on the concentration of various isoflavones in soybean. Field Crops Research, 81: 181-192.

  • Yan, W. and I. Rajcan. 2003. Prediction of cultivar performance based on single vs. multiple year trials. Crop Sci. 43: 549-555. [Abstract]

  • Yan, W. and L. A. Hunt. 2003. Biplot analysis of multi-environment trial data. pp.289-303. In: M. S. Kang (ed.) "Quantitative Genetics, Genomics, and Plant Breeding", CAB International, Wallingford, Oxon, UK.

  • Yan, W. 2002. Singular value partitioning for biplot analysis of multi-environment trial data. Agron J 94:990-996. [Abstract]

  • Yan, W. and D. E. Falk. 2002. Biplot analysis of host-by-pathogen interaction. Plant Disease 86:1396-1401.

  • Jose Crossa, Paul L. Cornelius, and W. Yan. 2002. Biplots of linear-bilinear models for studying crossover genotype by environment interaction. Crop Sci 42: 619-633.

  • Yan, W. and I. Rajcan. 2002. Biplot evaluation of test sites and trait relations of soybean in Ontario. Crop Sci. 42(1): 11-20. [Abstract]

  • Yan, W. and L. A. Hunt. 2002. Biplot analysis of diallel data. Crop Sci. 42(1): 21-30. [Abstract]

  • Yan, W. L.A. Hunt, Peter Johnson, Gregory Stewart, and Xuewen Lu. 2002. On-farm strip trials vs. replicated performance trials for cultivar evaluation. Crop Sci 42: 385-392. [Abstract]

  • Yan, W. 2001. GGEbiplot—a Windows application for graphical analysis of multi-environment trial data and other types of two-way data. Agron J 93(5): 1111-1118. [Abstract]

  • Yan, W., P. L. Cornelius, J. Crossa, and L. A. Hunt. 2001. Two types of GGE biplots for analyzing multi-environment trial data. Crop Sci. 41(3): 656-663. [Abstract]

  • Yan, W. and L. A. Hunt. 2001. Interpretation of genotype by environment interaction for winter wheat yield in Ontario. Crop Sci. 41(1): 19-25. [Abstract]

  • Yan, W., Q. Sheng, Y. G. Hu and L. A. Hunt. 2001. GGE biplot—an ideal method for graphical analysis of genotype by environment interaction. Acta Agronomica Sinica 27:21-28.

  • Yan, W. and L. A. Hunt, Q. Sheng, and Z. Szlavnics. 2000. Cultivar evaluation and mega-environment investigation based on GGE biplot. Crop Sci. 40(3): 597-605. [Abstract]

  • Yan, W. and L. A. Hunt. 1999. An equation modeling the temperature response of plant growth and development using only the cardinal temperatures. Annals of Botany, 84(5): 607-614.

  • Yan, W. and L. A. Hunt. 1999. Reanalysis of vernalization data of wheat and carrot. Annals of Botany, 84(5): 615-619.

  • Yan, W. and L. A. Hunt. 1998. Genotype by environment interaction and crop yield. Plant Breeding Reviews 16: 135-178.

  • Yan, W. and D. H. Wallace. 1998. Simulation and prediction of plant phenology for five crops based on photoperiod by temperature interaction. Annals of Botany 81:705-716.

  • Yan, W. and D. H. Wallace. 1996. A model of photoperiod x temperature interaction effects on plant development, Critical Reviews of Plant Sciences. 15(1): 63-96.

  • Yan, W. and D. H. Wallace. 1995. Breeding for negatively associated traits, Plant Breeding Review, 13:141-177.

  • Yan, W. and D. H. Wallace. 1995. A physiological-genetic model of photoperiod by temperature interaction in photoperiodism, vernalization, and male sterility in plants, Horticulture Review, 17: 74-122.

 

 


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