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Schmildt's genotypic confidence index

Source: R/Schmildt.R
Schmildt.Rd

[Stable]

Stability analysis using the known genotypic confidence index (Annicchiarico, 1992) modified by Schmildt et al. 2011.

Usage

Schmildt(.data, env, gen, rep, resp, prob = 0.05, verbose = TRUE)

Arguments

.data

The dataset containing the columns related to Environments, Genotypes, replication/block and response variable(s)

env

The name of the column that contains the levels of the environments.

gen

The name of the column that contains the levels of the genotypes.

rep

The name of the column that contains the levels of the replications/blocks

resp

The response variable(s). To analyze multiple variables in a single procedure use, for example, resp = c(var1, var2, var3).

prob

The probability of error assumed.

verbose

Logical argument. If verbose = FALSE the code will run silently.

Value

A list where each element is the result for one variable and contains the following data frames:

  • environments Contains the mean, environmental index and classification as favorables and unfavorables environments.

  • general Contains the genotypic confidence index considering all environments.

  • favorable Contains the genotypic confidence index considering favorable environments.

  • unfavorable Contains the genotypic confidence index considering unfavorable environments.

References

Annicchiarico, P. 1992. Cultivar adaptation and recommendation from alfalfa trials in Northern Italy. J. Genet. Breed. 46:269-278.

Schmildt, E.R., A.L. Nascimento, C.D. Cruz, and J.A.R. Oliveira. 2011. Avaliacao de metodologias de adaptabilidade e estabilidade de cultivares milho. Acta Sci. - Agron. 33:51-58. doi:10.4025/actasciagron.v33i1.5817

See also

superiority(), ecovalence(), ge_stats(), Annicchiarico()

Author

Tiago Olivoto, tiagoolivoto@gmail.com

Examples

# \donttest{
library(metan)
Sch <- Schmildt(data_ge2,
                env = ENV,
                gen = GEN,
                rep = REP,
                resp = PH)
#> Evaluating trait PH |============================================| 100% 00:00:00 

print(Sch)
#> Variable PH 
#> ---------------------------------------------------------------------------
#> Environmental index
#> ---------------------------------------------------------------------------
#> # A tibble: 4 × 4
#>   ENV       Y   index class      
#>   <fct> <dbl>   <dbl> <chr>      
#> 1 A1     2.79  0.308  favorable  
#> 2 A2     2.46 -0.0229 unfavorable
#> 3 A3     2.17 -0.318  unfavorable
#> 4 A4     2.52  0.0329 favorable  
#> ---------------------------------------------------------------------------
#> Analysis for all environments
#> ---------------------------------------------------------------------------
#> # A tibble: 13 × 6
#>    GEN    Mean Mean_rp Sem_rp    Wi  rank
#>    <chr> <dbl>   <dbl>  <dbl> <dbl> <dbl>
#>  1 H1     2.62   106.    4.69  97.9     2
#>  2 H10    2.31    93.0   3.47  87.3    12
#>  3 H11    2.39    96.1   3.14  90.9     9
#>  4 H12    2.44    98.6   5.61  89.3    10
#>  5 H13    2.54   103.    6.19  92.6     7
#>  6 H2     2.60   105.    4.96  96.7     3
#>  7 H3     2.59   104.    5.58  95.0     6
#>  8 H4     2.58   104.    4.38  96.4     5
#>  9 H5     2.57   103.    2.77  98.6     1
#> 10 H6     2.56   103.    3.92  96.5     4
#> 11 H7     2.40    96.8   3.34  91.3     8
#> 12 H8     2.33    93.6   4.81  85.7    13
#> 13 H9     2.36    94.8   3.42  89.2    11
#> ---------------------------------------------------------------------------
#> Analysis for favorable environments
#> ---------------------------------------------------------------------------
#> # A tibble: 13 × 6
#>    GEN       Y Mean_rp Sem_rp    Wi  rank
#>    <chr> <dbl>   <dbl>  <dbl> <dbl> <dbl>
#>  1 H1     2.68   101.   3.60   95.2     9
#>  2 H10    2.59    97.3  2.39   93.3    12
#>  3 H11    2.66   100.   1.70   97.3     7
#>  4 H12    2.61    98.5  2.12   95.0    10
#>  5 H13    2.66   100.   1.15   98.5     6
#>  6 H2     2.66   100.   0.144  99.9     3
#>  7 H3     2.70   101.   3.69   95.3     8
#>  8 H4     2.71   102.   0.593 101.      1
#>  9 H5     2.74   103.   1.64  100.      2
#> 10 H6     2.63    98.9  0.206  98.6     5
#> 11 H7     2.65    99.9  0.574  98.9     4
#> 12 H8     2.62    98.9  2.55   94.7    11
#> 13 H9     2.62    98.1  6.60   87.3    13
#> ---------------------------------------------------------------------------
#> Analysis for unfavorable environments
#> ---------------------------------------------------------------------------
#> # A tibble: 13 × 6
#>    GEN       Y Mean_rp Sem_rp    Wi  rank
#>    <chr> <dbl>   <dbl>  <dbl> <dbl> <dbl>
#>  1 H1     2.56   110.    8.80  95.7     1
#>  2 H10    2.04    88.7   5.41  79.8    11
#>  3 H11    2.12    92.1   4.90  84.0     8
#>  4 H12    2.26    98.6  13.6   76.3    12
#>  5 H13    2.41   105.   14.7   81.0    10
#>  6 H2     2.55   110.   10.1   92.9     3
#>  7 H3     2.49   107.   12.6   86.2     7
#>  8 H4     2.45   105.   10.5   87.8     6
#>  9 H5     2.40   103.    6.59  92.4     4
#> 10 H6     2.49   107.    7.67  94.4     2
#> 11 H7     2.16    93.6   6.85  82.4     9
#> 12 H8     2.03    88.3   8.67  74.0    13
#> 13 H9     2.11    91.5   2.13  88.0     5
#> 
#> 
#> 
# }