lineXtester: Line x Tester Analysis

Description Usage Arguments Details Value Author(s) References See Also Examples

View source: R/lineXtester.R

Description

It makes the Line x Tester Genetic Analysis. It also estimates the general and specific combinatory ability effects and the line and tester genetic contribution.

Usage

1

Arguments

replications

Replications

lines

Lines

testers

Testers

y

Variable, response

Details

output: Standard Errors for combining ability effects. Componentes geneticos. Variancias. Contribucion proporcional. ANOVA with parents and crosses. ANOVA for line X tester analysis. ANOVA for line X tester analysis including parents. GCA Effects. Lines Effects. Testers Effects. Standard Errors for Combining Ability Effects. Genetic Components. Proportional contribution of lines, testers and their interactions. to total variance.

Value

replications

vector, numeric

lines

vector, numeric

testers

vector, numeric

y

vector, numeric

Author(s)

Felipe de Mendiburu

References

Biometrical Methods in Quantitative Genetic Analysis, Singh, Chaudhary. 1979. Hierarchial and factorial mating designs for quantitative genetic analysis in tetrasomic potato. R. Ortis; A.Golmirzaie. Theor Appl Genet (2002) 104:675-679

See Also

AMMI

Examples

 1
 2
 3
 4
 5
 6
 7
 8
 9
10
# see structure line by testers
library(agricolae)
# example 1
data(heterosis)
site1<-subset(heterosis,heterosis[,1]==1)
output1<-with(site1,lineXtester(Replication, Female, Male, v2))
# example 2
data(LxT)
str(LxT)
output2<-with(LxT,lineXtester(replication, line, tester, yield))

Example output

ANALYSIS LINE x TESTER:  v2 

ANOVA with parents and crosses 
==============================
                     Df       Sum Sq     Mean Sq F value Pr(>F)
Replications          2  0.002674074 0.001337037   0.088 0.9159
Treatments           35 29.135740741 0.832449735  54.763 0.0000
Parents              11 21.221688889 1.929244444 126.917 0.0000
Parents vs. Crosses   1  1.692474074 1.692474074 111.341 0.0000
Crosses              23  6.221577778 0.270503382  17.795 0.0000
Error                70  1.064059259 0.015200847               
Total               107 30.202474074                           

ANOVA for line X tester analysis 
================================
                Df    Sum Sq    Mean Sq F value Pr(>F)
Lines            7 4.3497111 0.62138730   9.078 0.0003
Testers          2 0.9135444 0.45677222   6.673 0.0092
Lines X Testers 14 0.9583222 0.06845159   4.503 0.0000
Error           70 1.0640593 0.01520085               

ANOVA for line X tester analysis including parents 
==================================================
                     Df       Sum Sq     Mean Sq F value Pr(>F)
Replications          2  0.002674074 0.001337037   0.088 0.9159
Treatments           35 29.135740741 0.832449735  54.763 0.0000
Parents              11 21.221688889 1.929244444 126.917 0.0000
Parents vs. Crosses   1  1.692474074 1.692474074 111.341 0.0000
Crosses              23  6.221577778 0.270503382  17.795 0.0000
Lines                 7  4.349711111 0.621387302   9.078 0.0003
Testers               2  0.913544444 0.456772222   6.673 0.0092
Lines X Testers      14  0.958322222 0.068451587   4.503 0.0000
Error                70  1.064059259 0.015200847               
Total               107 30.202474074                           

GCA Effects: 
===========
Lines Effects:
Achirana     LT-8     MF-I    MF-II  Serrana    TPS-2   TPS-25    TPS-7 
   0.143   -0.346   -0.134   -0.169    0.394   -0.016    0.321   -0.194 

Testers Effects:
TPS-13 TPS-67  TS-15 
 0.104  0.052 -0.156 

SCA Effects: 
===========
          Testers
Lines      TPS-13 TPS-67  TS-15
  Achirana -0.010  0.002  0.008
  LT-8      0.186 -0.042 -0.144
  MF-I     -0.059  0.070 -0.011
  MF-II    -0.021  0.055 -0.034
  Serrana  -0.241  0.008  0.233
  TPS-2    -0.044  0.101 -0.057
  TPS-25    0.136 -0.259  0.123
  TPS-7     0.054  0.064 -0.118

Standard Errors for Combining Ability Effects: 
=============================================
S.E. (gca for line)   : 0.04109724
S.E. (gca for tester) : 0.02516682
S.E. (sca effect)     : 0.0711825
S.E. (gi - gj)line    : 0.05812027
S.E. (gi - gj)tester  : 0.03559125
S.E. (sij - skl)tester: 0.1006673 

Genetic Components: 
==================
Cov H.S. (line)   : 0.0614373
Cov H.S. (tester) : 0.01618003
Cov H.S. (average): 0.004651843
Cov F.S. (average): 0.1223343
F = 0, Adittive genetic variance: 0.01860737
F = 1, Adittive genetic variance: 0.009303686
F = 0, Variance due to Dominance: 0.03550049
F = 1, Variance due to Dominance: 0.01775025 

Proportional contribution of lines, testers 
 and their interactions to total variance 
===========================================
Contributions of lines  : 69.91331
Contributions of testers: 14.68349
Contributions of lxt    : 15.4032 
'data.frame':	92 obs. of  4 variables:
 $ replication: int  1 2 3 4 1 2 3 4 1 2 ...
 $ line       : int  1 1 1 1 1 1 1 1 1 1 ...
 $ tester     : int  6 6 6 6 7 7 7 7 8 8 ...
 $ yield      : num  74.4 70.9 60.9 68 91.8 ...

ANALYSIS LINE x TESTER:  yield 

ANOVA with parents and crosses 
==============================
                    Df      Sum Sq    Mean Sq F value Pr(>F)
Replications         3    83.00012   27.66671   0.304 0.8224
Treatments          22 32553.20239 1479.69102  16.249 0.0000
Parents              7  6299.88519  899.98360   9.883 0.0000
Parents vs. Crosses  1    53.66287   53.66287   0.589 0.4455
Crosses             14 26199.65433 1871.40388  20.551 0.0000
Error               66  6010.03298   91.06111               
Total               91 38646.23549                          

ANOVA for line X tester analysis 
================================
                Df    Sum Sq    Mean Sq F value Pr(>F)
Lines            4 10318.361 2579.59035   1.457 0.3009
Testers          2  1718.926  859.46289   0.485 0.6327
Lines X Testers  8 14162.367 1770.29590  19.441 0.0000
Error           66  6010.033   91.06111               

ANOVA for line X tester analysis including parents 
==================================================
                    Df      Sum Sq    Mean Sq F value Pr(>F)
Replications         3    83.00012   27.66671   0.304 0.8224
Treatments          22 32553.20239 1479.69102  16.249 0.0000
Parents              7  6299.88519  899.98360   9.883 0.0000
Parents vs. Crosses  1    53.66287   53.66287   0.589 0.4455
Crosses             14 26199.65433 1871.40388  20.551 0.0000
Lines                4 10318.36140 2579.59035   1.457 0.3009
Testers              2  1718.92577  859.46289   0.485 0.6327
Lines X Testers      8 14162.36716 1770.29590  19.441 0.0000
Error               66  6010.03298   91.06111               
Total               91 38646.23549                          

GCA Effects: 
===========
Lines Effects:
      1       2       3       4       5 
 -9.960  -0.718  23.817 -13.870   0.732 

Testers Effects:
     6      7      8 
 0.292  6.404 -6.697 

SCA Effects: 
===========
     Testers
Lines       6       7       8
    1  -8.019  24.959 -16.940
    2 -12.546   5.717   6.828
    3  -9.461  -4.918  14.378
    4  33.136 -14.321 -18.815
    5  -3.111 -11.438  14.548

Standard Errors for Combining Ability Effects: 
=============================================
S.E. (gca for line)   : 2.75471
S.E. (gca for tester) : 2.133789
S.E. (sca effect)     : 4.771297
S.E. (gi - gj)line    : 3.895748
S.E. (gi - gj)tester  : 3.017633
S.E. (sij - skl)tester: 6.747633 

Genetic Components: 
==================
Cov H.S. (line)   : 67.4412
Cov H.S. (tester) : -45.54165
Cov H.S. (average): 2.680894
Cov F.S. (average): 411.3472
F = 0, Adittive genetic variance: 10.72357
F = 1, Adittive genetic variance: 5.361787
F = 0, Variance due to Dominance: 839.6174
F = 1, Variance due to Dominance: 419.8087 

Proportional contribution of lines, testers 
 and their interactions to total variance 
===========================================
Contributions of lines  : 39.38358
Contributions of testers: 6.560872
Contributions of lxt    : 54.05555 

agricolae documentation built on July 26, 2017, 9:02 a.m.

Search within the agricolae package
Search all R packages, documentation and source code