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Getting started with baystability1 days ago
Abstract | The data | The least-squares AMMI fit of the second year | The Bayesian fit with the first year as prior | The biplot with HPD regions | Interpretation | Where to go next | References
baystability 1.0.0Muhammad Yaseen baystability_01_getting_started.qmd
Getting started with baystability (PDF)1 days ago
Abstract | The data | The least-squares AMMI fit of the second year | The Bayesian fit with the first year as prior | The biplot with HPD regions | Interpretation | Where to go next | References
baystability 1.0.0Muhammad Yaseen baystability_01_getting_started-pdf.pdf.asis
Model, priors from an earlier trial and the Gibbs sampler1 days ago
Abstract | Models | Priors from an earlier trial | Conditional distributions | Drawing the score matrices | Signs and starting values | The sampler | References
baystability 1.0.0Muhammad Yaseen baystability_02_theory.qmd
Model, priors from an earlier trial and the Gibbs sampler (PDF)1 days ago
Abstract | Models | Priors from an earlier trial | Conditional distributions | Drawing the score matrices | Signs and starting values | The sampler | References
baystability 1.0.0Muhammad Yaseen baystability_02_theory-pdf.pdf.asis
Reproducing Perez-Elizalde et al. (2012)1 days ago
Abstract | The fit | Table B.1: the linear effects | Why the posterior means are averages of the two years | Table 2: the residual standard deviation and the singular values | Table 2: the significant scores | Figure 4: the biplot | References
baystability 1.0.0Muhammad Yaseen baystability_03_perez2012.qmd
Reproducing Perez-Elizalde et al. (2012) (PDF)1 days ago
Abstract | The fit | Table B.1: the linear effects | Table 2: the residual standard deviation and the singular values | Table 2: the significant scores | Figure 4: the biplot | References
baystability 1.0.0Muhammad Yaseen baystability_03_perez2012-pdf.pdf.asis
The built-in application1 days ago
Abstract | Starting the application | The pages | Reproducibility | Deploying | References
baystability 1.0.0Muhammad Yaseen baystability_06_app.qmd
The built-in application (PDF)1 days ago
Abstract | Starting the application | The pages | Reproducibility | Deploying | References
baystability 1.0.0Muhammad Yaseen baystability_06_app-pdf.pdf.asis
The SREG (GGE) model, the weight of the earlier trial and the number of terms1 days ago
Abstract | The SREG model with the first year as prior | The weight of the earlier trial | How many terms? | References
baystability 1.0.0Muhammad Yaseen baystability_04_sreg_terms.qmd
The SREG (GGE) model, the weight of the earlier trial and the number of terms (PDF)1 days ago
Abstract | The SREG model with the first year as prior | The weight of the earlier trial | How many terms? | References
baystability 1.0.0Muhammad Yaseen baystability_04_sreg_terms-pdf.pdf.asis
Validation and corrections1 days ago
Abstract | Corrections to version 0.2.0 | The compiled sampler and the R reference | The pair moves | Simulated data | The published analysis | References
baystability 1.0.0Muhammad Yaseen baystability_05_validation.qmd
Validation and corrections (PDF)1 days ago
Abstract | Corrections to version 0.2.0 | The compiled sampler and the R reference | The pair moves | Simulated data | The published analysis | References
baystability 1.0.0Muhammad Yaseen baystability_05_validation-pdf.pdf.asis
Bayesian stability models: Eberhart-Russell, Finlay-Wilkinson and Shukla1 days ago
Abstract | Model | Priors | The sampler | The Eberhart-Russell model on Maiz | Least squares and Bayes | The safety-first index | Which model? | The stability fit and the decision tools | Interpretation and sources | References
bayesammi 1.0.0Muhammad Yaseen bayesammi_10_stability_models.qmd
Bayesian stability models: Eberhart-Russell, Finlay-Wilkinson and Shukla (PDF)1 days ago
Abstract | Model | The Eberhart-Russell model on Maiz | The safety-first index | Which model? | The stability fit and the decision tools | Interpretation and sources | References
bayesammi 1.0.0Muhammad Yaseen bayesammi_10_stability_models-pdf.pdf.asis
Convergence of the chains1 days ago
Abstract | Several chains | Traces | Gelman-Rubin | Raftery-Lewis | Heidelberger-Welch | Effective sample size and Monte Carlo error | The draws for further analysis | posterior and bayesplot | Interpretation of convergence | References
bayesammi 1.0.0Muhammad Yaseen bayesammi_05_convergence.qmd
Convergence of the chains (PDF)1 days ago
Abstract | Several chains | Traces | Gelman-Rubin | Raftery-Lewis | Heidelberger-Welch | Effective sample size and Monte Carlo error | The draws for further analysis | posterior and bayesplot | Interpretation of convergence | References
bayesammi 1.0.0Muhammad Yaseen bayesammi_05_convergence-pdf.pdf.asis
Decision tools for breeders1 days ago
Abstract | Probabilities of superior performance and stability | Posterior ranks | Bayesian stability | Predictions | Which genotype wins where | Model choice | Information criteria | Posterior predictive checks | Working with posterior, bayesplot and coda | Interpretation | References
bayesammi 1.0.0Muhammad Yaseen bayesammi_09_decisions.qmd
Decision tools for breeders (PDF)1 days ago
Abstract | Probabilities of superior performance and stability | Posterior ranks | Bayesian stability | Predictions | Which genotype wins where | Model choice | Working with posterior, bayesplot and coda | Interpretation | References
bayesammi 1.0.0Muhammad Yaseen bayesammi_09_decisions-pdf.pdf.asis
Getting started with bayesammi1 days ago
Abstract | The data | The least-squares AMMI fit | The Bayesian fit | Traces and the biplot | Interpretation | Where to go next | References
bayesammi 1.0.0Muhammad Yaseen bayesammi_01_getting_started.qmd
Getting started with bayesammi (PDF)1 days ago
Abstract | The data | The least-squares AMMI fit | The Bayesian fit | Traces and the biplot | Interpretation | Where to go next | References
bayesammi 1.0.0Muhammad Yaseen bayesammi_01_getting_started-pdf.pdf.asis
Inference on the biplot1 days ago
Abstract | The coordinates | HPD regions | Stable genotypes and environments | Only the unstable ones | Reading genotype and environment together | References
bayesammi 1.0.0Muhammad Yaseen bayesammi_04_biplots.qmd
Inference on the biplot (PDF)1 days ago
Abstract | The coordinates | HPD regions | Stable genotypes and environments | Only the unstable ones | Reading genotype and environment together | References
bayesammi 1.0.0Muhammad Yaseen bayesammi_04_biplots-pdf.pdf.asis
Interpreting the results1 days ago
Abstract | The Bayesian AMMI fit | The facts behind the sentences | The biplot | Stability models | Decisions and model choice | Markdown for reports | How each method is read | References
bayesammi 1.0.0Muhammad Yaseen bayesammi_14_interpretation.qmd
Interpreting the results (PDF)1 days ago
Abstract | The Bayesian AMMI fit | The facts behind the sentences | The biplot | Stability models | Decisions and model choice | Markdown for reports | How each method is read | References
bayesammi 1.0.0Muhammad Yaseen bayesammi_14_interpretation-pdf.pdf.asis
Model, priors and the Gibbs sampler1 days ago
Abstract | Model | Priors | Conditional distributions | Overall mean and main effects | Singular values | Score vectors | Error variance | Signs and identifiability | The sampler | Extensions | References
bayesammi 1.0.0Muhammad Yaseen bayesammi_02_theory.qmd
Model, priors and the Gibbs sampler (PDF)1 days ago
Abstract | Model | Priors | Conditional distributions | Signs and identifiability | The sampler | Extensions | References
bayesammi 1.0.0Muhammad Yaseen bayesammi_02_theory-pdf.pdf.asis
Posterior distributions of stability indices1 days ago
Abstract | Classical indices | AMMI-based indices | Indices from a stability model | Interpretation | References
bayesammi 1.0.0Muhammad Yaseen bayesammi_11_stability_indices.qmd
Posterior distributions of stability indices (PDF)1 days ago
Abstract | Classical indices | AMMI-based indices | Indices from a stability model | Interpretation | References
bayesammi 1.0.0Muhammad Yaseen bayesammi_11_stability_indices-pdf.pdf.asis
Priors and the number of bilinear terms1 days ago
Abstract | Vague priors | Informative priors | How many terms? | The posterior of the error variance with more terms | Information criteria | References
bayesammi 1.0.0Muhammad Yaseen bayesammi_06_priors_terms.qmd
Priors and the number of bilinear terms (PDF)1 days ago
Abstract | Vague priors | Informative priors | How many terms? | The posterior of the error variance with more terms | Information criteria | References
bayesammi 1.0.0Muhammad Yaseen bayesammi_06_priors_terms-pdf.pdf.asis
References of the methods1 days ago
How to cite | References by method
bayesammi 1.0.0Muhammad Yaseen bayesammi_15_references.qmd
References of the methods (PDF)1 days ago
How to cite | References by method
bayesammi 1.0.0Muhammad Yaseen bayesammi_15_references-pdf.pdf.asis
Reproducing Crossa et al. (2011)1 days ago
Abstract | The run of the paper | Table 1 | The error variance | Table B1: the first term | Table B1: the second term | Figure 1: traces and histograms of the singular values | Figures 2 to 4: biplots | References
bayesammi 1.0.0Muhammad Yaseen bayesammi_03_crossa2011.qmd
Reproducing Crossa et al. (2011) (PDF)1 days ago
Abstract | The run of the paper | Table 1 | Table B1: the first term | Table B1: the second term | Figure 1: traces and histograms of the singular values | Figures 2 to 4: biplots | References
bayesammi 1.0.0Muhammad Yaseen bayesammi_03_crossa2011-pdf.pdf.asis
The Bayesian GGE (SREG) model1 days ago
Abstract | Model | The fit | The GGE biplot with HPD regions | Which genotype wins where | AMMI or GGE? | Interpretation | References
bayesammi 1.0.0Muhammad Yaseen bayesammi_08_gge.qmd
The Bayesian GGE (SREG) model (PDF)1 days ago
Abstract | Model | The fit | The GGE biplot with HPD regions | Which genotype wins where | AMMI or GGE? | Interpretation | References
bayesammi 1.0.0Muhammad Yaseen bayesammi_08_gge-pdf.pdf.asis
The built-in application1 days ago
Abstract | Starting the application | The pages | Reproducibility | Deploying | References
bayesammi 1.0.0Muhammad Yaseen bayesammi_12_app.qmd
The built-in application (PDF)1 days ago
Abstract | Starting the application | The pages | Reproducibility | Deploying | References
bayesammi 1.0.0Muhammad Yaseen bayesammi_12_app-pdf.pdf.asis
Unbalanced trials and environment-specific variances1 days ago
Abstract | Missing plots and empty cells | The idea | An example | Environment-specific error variances | The model | The fit | Which variance model? | References
bayesammi 1.0.0Muhammad Yaseen bayesammi_07_unbalanced_het.qmd
Unbalanced trials and environment-specific variances (PDF)1 days ago
Abstract | Missing plots and empty cells | Environment-specific error variances | Which variance model? | References
bayesammi 1.0.0Muhammad Yaseen bayesammi_07_unbalanced_het-pdf.pdf.asis
Validation and corrections1 days ago
Abstract | Corrections to version 0.3.0 | The tables agree with version 0.3.0 | The building blocks | The compiled sampler and the R reference | The stability sampler | The information criteria | Simulated data | The published analysis | References
bayesammi 1.0.0Muhammad Yaseen bayesammi_13_validation.qmd
Validation and corrections (PDF)1 days ago
Abstract | Corrections to version 0.3.0 | The tables agree with version 0.3.0 | The building blocks | The compiled sampler and the R reference | The stability sampler | The information criteria | Simulated data | The published analysis | References
bayesammi 1.0.0Muhammad Yaseen bayesammi_13_validation-pdf.pdf.asis
AMMI analysis and AMMI stability values1 days ago
Abstract | The model | Biplots | Stability values | Summary | References
stability 1.0.0Muhammad Yaseen stability_06_ammi.qmd
AMMI analysis and AMMI stability values (PDF)1 days ago
Abstract | The model | Biplots | Stability values | Summary | References
stability 1.0.0Muhammad Yaseen stability_06_ammi-pdf.pdf.asis
Analyses of variance1 days ago
Abstract | Each environment | Combined analysis | Eberhart and Russell | Summary | References
stability 1.0.0Muhammad Yaseen stability_04_anova.qmd
Analyses of variance (PDF)1 days ago
Abstract | Each environment | Combined analysis | Eberhart and Russell | Summary | References
stability 1.0.0Muhammad Yaseen stability_04_anova-pdf.pdf.asis
Choosing a method1 days ago
Abstract | Two concepts of stability | Decision table | Columns and data | Summary | References
stability 1.0.0Muhammad Yaseen stability_02_choosing.qmd
Choosing a method (PDF)1 days ago
Abstract | Two concepts of stability | Decision table | Columns and data | Summary | References
stability 1.0.0Muhammad Yaseen stability_02_choosing-pdf.pdf.asis
Extending the package1 days ago
Abstract | The building blocks | A new statistic: the coefficient of regression of the interaction | Summary
stability 1.0.0Muhammad Yaseen stability_10_extending.qmd
Extending the package (PDF)1 days ago
Abstract | The building blocks | A new statistic: the coefficient of regression of the interaction | Summary
stability 1.0.0Muhammad Yaseen stability_10_extending-pdf.pdf.asis
Getting started with stability1 days ago
Abstract | The data | Is there an interaction? | Which genotypes are high-yielding and stable? | Which genotype wins where? | Summary | References
stability 1.0.0Muhammad Yaseen stability_01_getting_started.qmd
Getting started with stability (PDF)1 days ago
Abstract | The data | Is there an interaction? | Which genotypes are high-yielding and stable? | Which genotype wins where? | Summary | References
stability 1.0.0Muhammad Yaseen stability_01_getting_started-pdf.pdf.asis
Interpreting the results1 days ago
Abstract | The parts of an interpretation | Specific to each method | Traits where lower is better | In a report | Summary | References
stability 1.0.0Muhammad Yaseen stability_08_interpretation.qmd
Interpreting the results (PDF)1 days ago
Abstract | The parts of an interpretation | Specific to each method | Traits where lower is better | In a report | Summary | References
stability 1.0.0Muhammad Yaseen stability_08_interpretation-pdf.pdf.asis
Regression and variance-based stability1 days ago
Abstract | Regression on the environment index | Variance measures | Shukla's tests and Kang's yield-stability statistic | Rank methods | Safety-first and superiority | Nonparametric stability | Summary | References
stability 1.0.0Muhammad Yaseen stability_05_regression_variance.qmd
Regression and variance-based stability (PDF)1 days ago
Abstract | Regression on the environment index | Variance measures | Shukla's tests and Kang's yield-stability statistic | Rank methods | Safety-first and superiority | Nonparametric stability | Summary | References
stability 1.0.0Muhammad Yaseen stability_05_regression_variance-pdf.pdf.asis
The GGE biplot: every view with every scaling1 days ago
Abstract | The biplot and its scalings | Choosing the view and the scaling | Basic biplot | Genotype-focused scaling | Symmetric scaling | Environment-focused scaling | Which won where | Mean against stability | Discriminativeness and representativeness | All twelve at a glance | Summary | References
stability 1.0.0Muhammad Yaseen stability_07_gge.qmd
The GGE biplot: every view with every scaling (PDF)1 days ago
Abstract | The biplot and its scalings | Choosing the view and the scaling | Basic biplot | Which won where | Mean against stability | Discriminativeness and representativeness | All twelve at a glance | Summary | References
stability 1.0.0Muhammad Yaseen stability_07_gge-pdf.pdf.asis
Theory and notation1 days ago
Abstract | Notation | The two-way table | Scales | Summary | References
stability 1.0.0Muhammad Yaseen stability_03_theory.qmd
Theory and notation (PDF)1 days ago
Abstract | Notation | The two-way table | Scales | Summary | References
stability 1.0.0Muhammad Yaseen stability_03_theory-pdf.pdf.asis
Validation and the corrections of the earlier version1 days ago
Abstract | Analyses of variance against lm() | Regression against lm() | Eskridge (1990), Table 4 | Order of the rows | Corrections | Summary | References
stability 1.0.0Muhammad Yaseen stability_09_validation.qmd
Validation and the corrections of the earlier version (PDF)1 days ago
Abstract | Analyses of variance against lm() | Regression against lm() | Eskridge (1990), Table 4 | Order of the rows | Corrections | Summary | References
stability 1.0.0Muhammad Yaseen stability_09_validation-pdf.pdf.asis
Getting started with mhpfilter2 days ago
Abstract | The data | Three filters | The HP filter | The modified HP filter | The fully modified HP filter | Comparing the filters | Many series | Reading the results | Where next | References
mhpfilter 1.0.0Muhammad Yaseen mhpfilter_01_getting_started.qmd
Getting started with mhpfilter (PDF)2 days ago
Abstract | The data | Three filters | Comparing the filters | Many series | Reading the results | Where next | References
mhpfilter 1.0.0Muhammad Yaseen mhpfilter_01_getting_started-pdf.pdf.asis
Reproducing the fully modified HP filter2 days ago
Abstract | The published values | Weights (Figures 1 and 1a) | Gains (Figures 2 and 2b) | Loss (Figures 3 and 3b; Tables 3a and 3b) | The filter on US data | Agreement with the MATLAB code | References
mhpfilter 1.0.0Muhammad Yaseen mhpfilter_04_fully_modified_hp.qmd
Reproducing the fully modified HP filter (PDF)2 days ago
Abstract | The published values | Weights (Figures 1 and 1a) | Gains (Figures 2 and 2b) | Loss (Figures 3 and 3b; Tables 3a and 3b) | The filter on US data | Agreement with the MATLAB code | References
mhpfilter 1.0.0Muhammad Yaseen mhpfilter_04_fully_modified_hp-pdf.pdf.asis
Simulation study2 days ago
Abstract | The design | Results | Reading the results | References
mhpfilter 1.0.0Muhammad Yaseen mhpfilter_05_simulation.qmd
Simulation study (PDF)2 days ago
Abstract | The design | Results | Reading the results | References
mhpfilter 1.0.0Muhammad Yaseen mhpfilter_05_simulation-pdf.pdf.asis
The application2 days ago
Abstract | Starting the application | The pages | Reproducibility | Deploying | References
mhpfilter 1.0.0Muhammad Yaseen mhpfilter_06_app.qmd
The application (PDF)2 days ago
Abstract | Starting the application | The pages | Reproducibility | Deploying | References
mhpfilter 1.0.0Muhammad Yaseen mhpfilter_06_app-pdf.pdf.asis
The filters: theory and computation2 days ago
Abstract | The HP filter | Choosing lambda from the data | The criterion of the modified HP filter | The two criteria on the US data | The end-point bias | Weights | Gains | Loss | The fully modified HP filter | End-point schemes | Two forms of the weights | The procedure | References
mhpfilter 1.0.0Muhammad Yaseen mhpfilter_02_theory.qmd
The filters: theory and computation (PDF)2 days ago
Abstract | The HP filter | Choosing lambda from the data | The end-point bias | The fully modified HP filter | References
mhpfilter 1.0.0Muhammad Yaseen mhpfilter_02_theory-pdf.pdf.asis
The modified HP filter2 days ago
Abstract | The idea | One series | Three US series | Against the HP filter | How stable is the choice? | The simulation designs of the paper | References
mhpfilter 1.0.0Muhammad Yaseen mhpfilter_03_modified_hp.qmd
The modified HP filter (PDF)2 days ago
Abstract | The idea | One series | Three US series | Against the HP filter | How stable is the choice? | The simulation designs of the paper | References
mhpfilter 1.0.0Muhammad Yaseen mhpfilter_03_modified_hp-pdf.pdf.asis
Validation and speed2 days ago
Abstract | Against version 0.1.0 | Against dense computations | Against the MATLAB code | Against the published values | Speed | References
mhpfilter 1.0.0Muhammad Yaseen mhpfilter_07_validation.qmd
Validation and speed (PDF)2 days ago
Abstract | Against version 0.1.0 | Against dense computations | Against the MATLAB code | Against the published values | Speed | References
mhpfilter 1.0.0Muhammad Yaseen mhpfilter_07_validation-pdf.pdf.asis
Benchmark rate and index formula2 days ago
Abstract | The benchmark rate | The index formula | When the simple sum misleads | References
dmai 1.0.0Muhammad Yaseen dmai_03_choices.qmd
Benchmark rate and index formula (PDF)2 days ago
Abstract | The benchmark rate | The index formula | When the simple sum misleads | References
dmai 1.0.0Muhammad Yaseen dmai_03_choices-pdf.pdf.asis
Getting started with dmai2 days ago
Abstract | The data | The Divisia aggregate | Reading the result | The other methods | User costs and second moments | Your own data | References
dmai 1.0.0Muhammad Yaseen dmai_01_getting_started.qmd
Getting started with dmai (PDF)2 days ago
Abstract | The data | The Divisia aggregate | Reading the result | The other methods | User costs and second moments | Your own data | References
dmai 1.0.0Muhammad Yaseen dmai_01_getting_started-pdf.pdf.asis
The application2 days ago
Abstract | Starting the application | The pages | Reproducibility | Deploying | References
dmai 1.0.0Muhammad Yaseen dmai_04_app.qmd
The application (PDF)2 days ago
Abstract | Starting the application | The pages | Reproducibility | Deploying | References
dmai 1.0.0Muhammad Yaseen dmai_04_app-pdf.pdf.asis
Theory and notation2 days ago
Abstract | Notation | User costs | Indexes | The dual price index | Second moments | References
dmai 1.0.0Muhammad Yaseen dmai_02_theory.qmd
Theory and notation (PDF)2 days ago
Abstract | Notation | User costs | Indexes | The dual price index | Second moments | References
dmai 1.0.0Muhammad Yaseen dmai_02_theory-pdf.pdf.asis
Validation and speed2 days ago
Abstract | Against version 0.5.0 | Against published index numbers | Identities | Speed | References
dmai 1.0.0Muhammad Yaseen dmai_05_validation.qmd
Validation and speed (PDF)2 days ago
Abstract | Against version 0.5.0 | Against published index numbers | Identities | Speed | References
dmai 1.0.0Muhammad Yaseen dmai_05_validation-pdf.pdf.asis
Choosing an analysis4 days ago
Abstract | Decision table | Which method does a data set fit? | What happens when a plot or a cross is missing | Column names | Summary | References
DiallelAnalysisR 1.0.0Muhammad Yaseen DiallelAnalysisR_02_choosing.qmd
Choosing an analysis (PDF)4 days ago
Abstract | Decision table | Which method does a data set fit? | What happens when a plot or a cross is missing | Column names | Summary | References
DiallelAnalysisR 1.0.0Muhammad Yaseen DiallelAnalysisR_02_choosing-pdf.pdf.asis
Diallels over environments and the biplot4 days ago
Abstract | A diallel over several environments | A biplot of the crosses | Summary | References
DiallelAnalysisR 1.0.0Muhammad Yaseen DiallelAnalysisR_10_environments.qmd
Diallels over environments and the biplot (PDF)4 days ago
Abstract | A diallel over several environments | A biplot of the crosses | Summary | References
DiallelAnalysisR 1.0.0Muhammad Yaseen DiallelAnalysisR_10_environments-pdf.pdf.asis
Extending the package4 days ago
Abstract | The parts of an analysis | Building blocks available | Example: heterosis over the mid-parent | Summary
DiallelAnalysisR 1.0.0Muhammad Yaseen DiallelAnalysisR_15_extending.qmd
Extending the package (PDF)4 days ago
Abstract | The parts of an analysis | Building blocks available | Example: heterosis over the mid-parent | Summary
DiallelAnalysisR 1.0.0Muhammad Yaseen DiallelAnalysisR_15_extending-pdf.pdf.asis
Getting started with DiallelAnalysisR4 days ago
Abstract | The data | One analysis | The analysis of variance | Effects and standard errors | Plots | The usual model functions | Tables for a report | Summary | References
DiallelAnalysisR 1.0.0Muhammad Yaseen DiallelAnalysisR_01_getting_started.qmd
Getting started with DiallelAnalysisR (PDF)4 days ago
Abstract | The data | One analysis | The analysis of variance | Effects and standard errors | Plots | The usual model functions | Tables for a report | Summary | References
DiallelAnalysisR 1.0.0Muhammad Yaseen DiallelAnalysisR_01_getting_started-pdf.pdf.asis
Griffing's methods with fixed effects4 days ago
Abstract | The four methods on one data set | Method 1: parents, $F_1$ and reciprocals | Standard errors and comparisons | Predicting crosses from general combining ability | Methods 2, 3 and 4 | Plots | Summary | References
DiallelAnalysisR 1.0.0Muhammad Yaseen DiallelAnalysisR_04_griffing_fixed.qmd
Griffing's methods with fixed effects (PDF)4 days ago
Abstract | The four methods on one data set | Method 1: parents, F_1 and reciprocals | Standard errors and comparisons | Predicting crosses from general combining ability | Methods 2, 3 and 4 | Plots | Summary | References
DiallelAnalysisR 1.0.0Muhammad Yaseen DiallelAnalysisR_04_griffing_fixed-pdf.pdf.asis
Griffing's methods with random effects4 days ago
Abstract | Variance components | All four methods | Additive and dominance variance | Summary | References
DiallelAnalysisR 1.0.0Muhammad Yaseen DiallelAnalysisR_05_griffing_random.qmd
Griffing's methods with random effects (PDF)4 days ago
Abstract | Variance components | All four methods | Additive and dominance variance | Summary | References
DiallelAnalysisR 1.0.0Muhammad Yaseen DiallelAnalysisR_05_griffing_random-pdf.pdf.asis
Hayman's analysis4 days ago
Abstract | The analysis | Arrays: $V_r$ and $W_r$ | The $W_r$-$V_r$ graph | Tests of the model | Components of variation | Summary | References
DiallelAnalysisR 1.0.0Muhammad Yaseen DiallelAnalysisR_06_hayman.qmd
Hayman's analysis (PDF)4 days ago
Abstract | The analysis | Arrays: V_r and W_r | The W_r-V_r graph | Tests of the model | Components of variation | Summary | References
DiallelAnalysisR 1.0.0Muhammad Yaseen DiallelAnalysisR_06_hayman-pdf.pdf.asis
Heterosis, maternal effects and Gardner and Eberhart4 days ago
Abstract | Heterosis | Maternal and non-maternal reciprocal effects | Gardner and Eberhart's Analyses II and III | Summary | References
DiallelAnalysisR 1.0.0Muhammad Yaseen DiallelAnalysisR_08_heterosis.qmd
Heterosis, maternal effects and Gardner and Eberhart (PDF)4 days ago
Abstract | Heterosis | Maternal and non-maternal reciprocal effects | Gardner and Eberhart's Analyses II and III | Summary | References
DiallelAnalysisR 1.0.0Muhammad Yaseen DiallelAnalysisR_08_heterosis-pdf.pdf.asis
Line by tester and North Carolina designs4 days ago
Abstract | Line $\times$ tester analysis | North Carolina designs | Summary | References
DiallelAnalysisR 1.0.0Muhammad Yaseen DiallelAnalysisR_09_linetester.qmd
Line by tester and North Carolina designs (PDF)4 days ago
Abstract | Line \times tester analysis | North Carolina designs | Summary | References
DiallelAnalysisR 1.0.0Muhammad Yaseen DiallelAnalysisR_09_linetester-pdf.pdf.asis
Partial diallel between two groups4 days ago
Abstract | The data | The analysis | Effects | Summary | References
DiallelAnalysisR 1.0.0Muhammad Yaseen DiallelAnalysisR_07_partial.qmd
Partial diallel between two groups (PDF)4 days ago
Abstract | The data | The analysis | Effects | Summary | References
DiallelAnalysisR 1.0.0Muhammad Yaseen DiallelAnalysisR_07_partial-pdf.pdf.asis
Simulation and planning the number of replicates4 days ago
Abstract | Simulation and the number of replicates | Summary | References
DiallelAnalysisR 1.0.0Muhammad Yaseen DiallelAnalysisR_11_planning.qmd
Simulation and planning the number of replicates (PDF)4 days ago
Abstract | Simulation and the number of replicates | Summary | References
DiallelAnalysisR 1.0.0Muhammad Yaseen DiallelAnalysisR_11_planning-pdf.pdf.asis
Speed4 days ago
Abstract | Timings | Where the time goes | Summary
DiallelAnalysisR 1.0.0Muhammad Yaseen DiallelAnalysisR_14_speed.qmd
Speed (PDF)4 days ago
Abstract | Timings | Where the time goes | Summary
DiallelAnalysisR 1.0.0Muhammad Yaseen DiallelAnalysisR_14_speed-pdf.pdf.asis
Tables for papers and the interactive application4 days ago
Abstract | The tables of an analysis | Export to Word, LaTeX, HTML, Markdown or CSV | The interactive application | Summary
DiallelAnalysisR 1.0.0Muhammad Yaseen DiallelAnalysisR_12_export_app.qmd
Tables for papers and the interactive application (PDF)4 days ago
Abstract | The tables of an analysis | Export to Word, LaTeX, HTML, Markdown or CSV | The interactive application | Summary
DiallelAnalysisR 1.0.0Muhammad Yaseen DiallelAnalysisR_12_export_app-pdf.pdf.asis
Theory and notation4 days ago
Abstract | Notation | The diallel model | Least squares | Fixed and random models | Hayman's model | Summary | References
DiallelAnalysisR 1.0.0Muhammad Yaseen DiallelAnalysisR_03_theory.qmd
Theory and notation (PDF)4 days ago
Abstract | Notation | The diallel model | Least squares | Fixed and random models | Hayman's model | Summary | References
DiallelAnalysisR 1.0.0Muhammad Yaseen DiallelAnalysisR_03_theory-pdf.pdf.asis
Validation and the corrections of version 0.6.04 days ago
Abstract | Closed forms against the exact decomposition | Sums of squares against a linear model | Results that changed | Published values: Griffing (1956) | Summary | References
DiallelAnalysisR 1.0.0Muhammad Yaseen DiallelAnalysisR_13_validation.qmd
Validation and the corrections of version 0.6.0 (PDF)4 days ago
Abstract | Closed forms against the exact decomposition | Sums of squares against a linear model | Results that changed | Published values: Griffing (1956) | Summary | References
DiallelAnalysisR 1.0.0Muhammad Yaseen DiallelAnalysisR_13_validation-pdf.pdf.asis
Book Examples in R6 months ago
Chapter and Example Map | Example 2.4.3.1 | Example 2.6.1 | Post Hoc Inference with emmeans | Modern Preprocessing Pattern | Example 3.1
VetResearchLMM 1.1.0Muhammad Yaseen vetresearchlmm-examples.qmd
Introduction to VetResearchLMM6 months ago
Scope | Included Data | Working With an Example | Book Verification Note
VetResearchLMM 1.1.0Muhammad Yaseen vetresearchlmm-introduction.qmd
Linear Mixed Model Methodology6 months ago
Model Form | Fixed Effects | Variance Components | Reporting Fitted Models | Post Hoc Inference with emmeans | Inference
VetResearchLMM 1.1.0Muhammad Yaseen vetresearchlmm-methodology.qmd
Plotting the Veterinary Examples6 months ago
Plotting Principles | Split-Plot Packed Cell Volume Data | Region, Drug, and Dose Means | Longitudinal PCV Data | Model-Based Lines for Example 3.1
VetResearchLMM 1.1.0Muhammad Yaseen vetresearchlmm-plotting.qmd
PakPC2023: Pakistan data from Pakistan Population Census 20232 years ago
Introduction | Province Level | Division Level | District Level
PakPC2023 0.2.0Muhammad YaseenPakPC2023Intro.Rmd
MICS6 Household Questionnaire7 years ago
PakPMICS2018 1.2.0Muhammad Yaseen MICS6HouseholdQuestionnaire.pdf.asis
MICS6 Questionnaire for Children Age 5-177 years ago
PakPMICS2018 1.2.0Muhammad Yaseen MICS6QuestionnaireforChildrenAge5-17.pdf.asis
MICS6 Questionnaire for Children Under Five7 years ago
PakPMICS2018 1.2.0Muhammad Yaseen MICS6QuestionnaireforChildrenUnderFive.pdf.asis
MICS6 Questionnaire for Individual Men7 years ago
PakPMICS2018 1.2.0Muhammad Yaseen MICS6QuestionnaireforIndividualMen.pdf.asis
MICS6 Questionnaire for Individual Women7 years ago
PakPMICS2018 1.2.0Muhammad Yaseen MICS6QuestionnaireforIndividualWomen.pdf.asis
MICS6 Water Quality Testing Questionnaire7 years ago
PakPMICS2018 1.2.0Muhammad Yaseen MICS6WaterQualityTestingQuestionnaire.pdf.asis
Introduction to SupMZ7 years ago
1 Overview | Session Info | References
SupMZ 0.3.0Muhammad Yaseen^1^, Sami Ullah^1^^,^ ^2^, and Gulfam Haider^3^IntroSupMZ.Rmd
MICS6 Questionnaire for Individual Men7 years ago
PakPMICS2018mn 0.1.0Muhammad Yaseen MICS6QuestionnaireforIndividualMen.pdf.asis
MICS6 Questionnaire for Individual Women7 years ago
PakPMICS2018mm 0.1.0Muhammad Yaseen MICS6QuestionnaireforIndividualWomen.pdf.asis
MICS6 Household Questionnaire7 years ago
PakPMICS2018hh 0.1.0Muhammad Yaseen MICS6HouseholdQuestionnaire.pdf.asis
MICS6 Water Quality Testing Questionnaire7 years ago
PakPMICS2018hh 0.1.0Muhammad Yaseen MICS6WaterQualityTestingQuestionnaire.pdf.asis
MICS6 Questionnaire for Children Age 5-177 years ago
PakPMICS2018fs 0.1.0Muhammad Yaseen MICS6QuestionnaireforChildrenAge5-17.pdf.asis
MICS6 Questionnaire for Individual Women7 years ago
PakPMICS2018bh 0.1.0Muhammad Yaseen MICS6QuestionnaireforIndividualWomen.pdf.asis
An Introduction to PakPC20179 years ago
1 Introduction
PakPC2017 1.0.0Muhammad Yaseen PakPC2017-Intro.pdf.asis