ammistability {ammistability} | R Documentation |

`ammistability`

computes multiple stability parameters from an AMMI
model. Further, the corresponding Simultaneous Selection Indices for Yield
and Stability (SSI) are also calculated according to the argument
`ssi.method`

. From the results, correlation between the computed indices
will also be computed. The resulting correlation matrices will be plotted as
correlograms. For visual comparisons of ranks of genotypes for different
indices, slopegraphs and heatmaps will also be generated by this function.

ammistability( model, n, alpha = 0.05, ssi.method = c("farshadfar", "rao"), a = 1, AMGE = TRUE, ASI = TRUE, ASV = TRUE, ASTAB = TRUE, AVAMGE = TRUE, DA = TRUE, DZ = TRUE, EV = TRUE, FA = TRUE, MASI = TRUE, MASV = TRUE, SIPC = TRUE, ZA = TRUE, force.grouping = TRUE, line.size = 1, line.alpha = 0.5, line.col = NULL, point.size = 1, point.alpha = 0.5, point.col = NULL, text.size = 2 )

`model` |
The AMMI model (An object of class |

`n` |
The number of principal components to be considered for computation. The default value is the number of significant IPCs. |

`alpha` |
Type I error probability (Significance level) to be considered to identify the number of significant IPCs. |

`ssi.method` |
The method for the computation of simultaneous selection
index. Either |

`a` |
The ratio of the weights given to the stability components for
computation of SSI when |

`AMGE` |
If |

`ASI` |
If |

`ASV` |
If |

`ASTAB` |
If |

`AVAMGE` |
If |

`DA` |
If |

`DZ` |
If |

`EV` |
If |

`FA` |
If |

`MASI` |
If |

`MASV` |
If |

`SIPC` |
If |

`ZA` |
If |

`force.grouping` |
If |

`line.size` |
Size of lines plotted in the slopegraphs. Must be numeric. |

`line.alpha` |
Transparency of lines plotted in the slopegraphs. Must be numeric. |

`line.col` |
Default is |

`point.size` |
Size of points plotted in the slopegraphs. Must be numeric. |

`point.alpha` |
Transparency of points plotted in the slopegraphs. Must be numeric. |

`point.col` |
Default is |

`text.size` |
Size of text annotations plotted in the slopegraphs. Must be numeric. |

`ammistability`

computes the following stability parameters from an AMMI
model.

- Sum Across Environments of GEI Modelled by AMMI (AMGE)
Sneller et al. (1997)

- AMMI Stability Index (ASI)
Jambhulkar et al. (2014); Jambhulkar et al. (2015); Jambhulkar et al. (2017)

- AMMI Stability Value (ASV)
Purchase (1997); Purchase et al. (1999); Purchase et al. (2000)

- AMMI Based Stability Parameter (ASTAB)
Rao and Prabhakaran (2005)

- Sum Across Environments of Absolute Value of GEI Modelled by AMMI (AVAMGE)
Zali et al. (2012)

- Annicchiarico's D Parameter (DA)
Annicchiarico (1997)

- Zhang's D Parameter (DZ)
Zhang et al. (1998)

- Averages of the Squared Eigenvector Values (EV)
Zobel (1994)

- Stability Measure Based on Fitted AMMI Model (FA)
Raju (2002)

- Modified AMMI Stability Index (MASI)
Ajay et al. (2018)

- Modified AMMI Stability Value (MASV)
Zali et al. (2012); Ajay et al. (2019)

- Sums of the Absolute Value of the IPC Scores (SIPC)
Sneller et al. (1997)

- Absolute Value of the Relative Contribution of IPCs to the Interaction (Za)
Zali et al. (2012)

A list with the following components:

`Details` |
A data frame indicating the stability parameters computed and the method used for computing the SSI. |

`Stability Parameters` |
A data frame of computed stability parameters. |

`Simultaneous Selection Indices` |
A data frame of computed SSIs. |

`SP Correlation` |
A data frame of correlation between stability parameters. |

`SSI Correlation` |
A data frame of correlation between SSIs. |

`SP and SSI Correlation` |
A data frame of correlation between stability parameters and SSIs. |

```
SP
Correlogram
``` |
Correlogram of stability parameters. |

```
SSI
Correlogram
``` |
Correlogram of SSIs. |

```
SP and SSI
Correlogram
``` |
Correlogram of stability parameters and SSIs. |

```
SP
Slopegraph
``` |
Slopegraph of stability parameter ranks. |

```
SSI
Slopegraph
``` |
Slopegraph of SSI ranks. |

`SP Heatmap` |
Heatmap of stability parameter ranks. |

`SSI Heatmap` |
Heatmap of SSI ranks. |

Ajay BC, Aravind J, Abdul Fiyaz R, Bera SK, Kumar N, Gangadhar K, Kona P (2018).
“Modified AMMI Stability Index (MASI) for stability analysis.”
*ICAR-DGR Newsletter*, **18**, 4–5.

Ajay BC, Aravind J, Fiyaz RA (2019).
“ammistability: R package for ranking genotypes based on stability parameters derived from AMMI model.”
*Indian Journal of Genetics and Plant Breeding (The)*, **79**(2), 460–466.
https://www.isgpb.org/article/ammistability-r-package-for-ranking-genotypes-based-on-stability-parameters-derived-from-ammi-model.

Annicchiarico P (1997).
“Joint regression vs AMMI analysis of genotype-environment interactions for cereals in Italy.”
*Euphytica*, **94**(1), 53–62.
doi: 10.1023/A:1002954824178, https://link.springer.com/article/10.1023/A:1002954824178.

Jambhulkar NN, Bose LK, Pande K, Singh ON (2015).
“Genotype by environment interaction and stability analysis in rice genotypes.”
*Ecology, Environment and Conservation*, **21**(3), 1427–1430.
http://www.envirobiotechjournals.com/article_abstract.php?aid=6346&iid=200&jid=3.

Jambhulkar NN, Bose LK, Singh ON (2014).
“AMMI stability index for stability analysis.”
In Mohapatra T (ed.), *CRRI Newsletter, January-March 2014*, volume 35(1), 15.
Central Rice Research Institute, Cuttack, Orissa.
http://www.crri.nic.in/CRRI_newsletter/crnl_jan_mar_14_web.pdf.

Jambhulkar NN, Rath NC, Bose LK, Subudhi HN, Biswajit M, Lipi D, Meher J (2017).
“Stability analysis for grain yield in rice in demonstrations conducted during rabi season in India.”
*Oryza*, **54**(2), 236–240.
doi: 10.5958/2249-5266.2017.00030.3, https://doi.org/10.5958/2249-5266.2017.00030.3.

Purchase JL (1997).
*Parametric analysis to describe genotype × environment interaction and yield stability in winter wheat*.
Ph.D. thesis, University of the Orange Free State.
http://scholar.ufs.ac.za:8080/xmlui/handle/11660/1966.

Purchase JL, Hatting H, van Deventer CS (1999).
“The use of the AMMI model and AMMI stability value to describe genotype x environment interaction and yield stability in winter wheat (*Triticum aestivum* L.).”
In *Proceedings of the Tenth Regional Wheat Workshop for Eastern, Central and Southern Africa, 14-18 September 1998*.
University of Stellenbosch, South Africa.

Purchase JL, Hatting H, van Deventer CS (2000).
“Genotype × environment interaction of winter wheat (*Triticum aestivum* L.) in South Africa: II. Stability analysis of yield performance.”
*South African Journal of Plant and Soil*, **17**(3), 101–107.
doi: 10.1080/02571862.2000.10634878, https://doi.org/10.1080/02571862.2000.10634878.

Raju BMK (2002).
“A study on AMMI model and its biplots.”
*Journal of the Indian Society of Agricultural Statistics*, **55**(3), 297–322.

Rao AR, Prabhakaran VT (2005).
“Use of AMMI in simultaneous selection of genotypes for yield and stability.”
*Journal of the Indian Society of Agricultural Statistics*, **59**, 76–82.

Sneller CH, Kilgore-Norquest L, Dombek D (1997).
“Repeatability of yield stability statistics in soybean.”
*Crop Science*, **37**(2), 383–390.
doi: 10.2135/cropsci1997.0011183X003700020013x, https://doi.org/10.2135/cropsci1997.0011183X003700020013x.

Zali H, Farshadfar E, Sabaghpour SH, Karimizadeh R (2012).
“Evaluation of genotype × environment interaction in chickpea using measures of stability from AMMI model.”
*Annals of Biological Research*, **3**(7), 3126–3136.

Zhang Z, Lu C, Xiang Z (1998).
“Analysis of variety stability based on AMMI model.”
*Acta Agronomica Sinica*, **24**(3), 304–309.
http://zwxb.chinacrops.org/EN/Y1998/V24/I03/304.

Zobel RW (1994).
“Stress resistance and root systems.”
In *Proceedings of the Workshop on Adaptation of Plants to Soil Stress. 1-4 August, 1993. INTSORMIL Publication 94-2*, 80–99.
Institute of Agriculture and Natural Resources, University of Nebraska-Lincoln.

`AMMI`

,
`AMGE.AMMI`

,
`ASI.AMMI`

,
`ASTAB.AMMI`

,
`AMGE.AMMI`

,
`DA.AMMI`

, `DZ.AMMI`

,
`EV.AMMI`

, `FA.AMMI`

,
`MASV.AMMI`

,
`SIPC.AMMI`

,
`ZA.AMMI`

, `SSI`

library(agricolae) data(plrv) # AMMI model model <- with(plrv, AMMI(Locality, Genotype, Rep, Yield, console = FALSE)) ammistability(model, AMGE = TRUE, ASI = FALSE, ASV = TRUE, ASTAB = FALSE, AVAMGE = FALSE, DA = FALSE, DZ = FALSE, EV = TRUE, FA = FALSE, MASI = FALSE, MASV = TRUE, SIPC = TRUE, ZA = FALSE)

[Package *ammistability* version 0.1.2 Index]