Description
Comprehensive Statistical Tools for Agricultural Research.
Description
A comprehensive suite of statistical and analytical tools for agricultural research. Includes complete analysis of variance (ANOVA) functions for all experimental designs: Completely Randomized Design (CRD), Randomized Block Design (RBD), Pooled RBD, Split Plot with all variations, Split-Split Plot, Strip Plot, Latin Square, Factorial, Augmented, and Alpha Lattice, with proper error terms and comprehensive Standard Error (SE) and Critical Difference (CD) calculations. Features multiple post-hoc tests: Least Significant Difference (LSD), Duncan Multiple Range Test (DMRT), Tukey Honestly Significant Difference (HSD), Student-Newman-Keuls (SNK), Scheffe, Bonferroni, and Dunnett, along with assumption checking and publication-ready output. Advanced methods include stability analysis using Eberhart-Russell regression, Additive Main Effects and Multiplicative Interaction (AMMI), Finlay-Wilkinson regression, Shukla stability variance, Wricke ecovalence, Coefficient of Variation (CV), and Cultivar Superiority Index as described in Eberhart and Russell (1966) <doi:10.2135/cropsci1966.0011183X000600010011x>. Thermal indices include Growing Degree Days (GDD), Heliothermal Units (HTU), Photothermal Units (PTU), and Heat Use Efficiency (HUE). Crop growth analysis covers Crop Growth Rate (CGR), Relative Growth Rate (RGR), Net Assimilation Rate (NAR), and Leaf Area Index (LAI). Also provides harvest index, yield gap analysis, economic efficiency indices (Benefit-Cost ratio), nutrient use efficiency calculations, correlation matrix, Principal Component Analysis (PCA), path analysis, and Structural Equation Modeling (SEM). Statistical methods follow Gomez and Gomez (1984, ISBN:0471870927) and Panse and Sukhatme (1985, ISBN:8170271169).
README.md
aridagri
Comprehensive Statistical Tools for Agricultural Research
aridagri is a comprehensive R package providing 35+ functions for statistical analysis in agricultural research, with special focus on experimental design analysis and agronomic calculations.
Key Features
- 🔬 Complete ANOVA Suite: All experimental designs with proper error terms
- 📊 Multiple Post-Hoc Tests: LSD, Duncan, Tukey, SNK, Scheffé, Bonferroni, Dunnett
- 📈 Stability Analysis: 7 methods (Eberhart-Russell, AMMI, Finlay-Wilkinson, Shukla, Wricke, CV, Superiority)
- 🌡️ Thermal Indices: GDD, HTU, PTU, Heat Use Efficiency
- 🌱 Crop Growth Analysis: CGR, RGR, NAR, LAI
- 📋 Publication-Ready Output: Formatted tables with SE, CD, CV
Installation
# Install devtools if needed
install.packages("devtools")
# Install aridagri from GitHub
devtools::install_github("lalitrolaniya/aridagri")
Function Overview
Experimental Design ANOVA (17 Functions)
| Function | Design |
|---|---|
anova_crd() | Completely Randomized Design |
anova_rbd() | Randomized Block Design |
anova_rbd_pooled() | Pooled RBD (Multi-Environment) |
anova_latin() | Latin Square Design |
anova_factorial() | Two-Factor Factorial |
anova_factorial_3way() | Three-Factor Factorial |
anova_spd() | Split Plot Design |
anova_spd_ab_main() | SPD with (A×B) in Main Plot |
anova_spd_c_main_ab_sub() | SPD with C Main, (A×B) Sub |
anova_spd_ab_cd() | SPD with (A×B) Main, (C×D) Sub |
anova_spd_pooled() | Pooled Split Plot Design |
anova_sspd() | Split-Split Plot Design |
anova_sspd_pooled() | Pooled SSPD |
anova_strip() | Strip Plot Design |
anova_augmented() | Augmented Block Design |
anova_alpha_lattice() | Alpha Lattice Design |
Post-Hoc Tests (8 Methods)
All available via perform_posthoc():
- Fisher's LSD
- Duncan's Multiple Range Test (DMRT)
- Tukey's HSD
- Student-Newman-Keuls (SNK)
- Scheffé's Test
- Bonferroni Correction
- Dunnett's Test (vs Control)
Agronomic Analysis (6 Functions)
| Function | Analysis |
|---|---|
stability_analysis() | 7-method stability analysis |
thermal_indices() | GDD, HTU, PTU, HUE |
crop_growth_analysis() | CGR, RGR, NAR, LAI |
harvest_index() | HI and partitioning |
yield_gap_analysis() | Yield gap calculations |
economic_indices() | B:C ratio, net returns |
Statistical Analysis (4 Functions)
| Function | Analysis |
|---|---|
correlation_analysis() | Correlation matrix with significance |
pca_analysis() | Principal Component Analysis |
path_analysis() | Path coefficients |
sem_analysis() | Structural Equation Modeling |
Nutrient Analysis (3 Functions)
| Function | Analysis |
|---|---|
nue_calculate() | Nutrient Use Efficiency indices |
nutrient_response() | Response curve analysis |
economic_analysis() | Economic optimum |
Quick Examples
Split-Split Plot Design ANOVA
library(aridagri)
data <- expand.grid(
rep = 1:3,
irrigation = c("I1", "I2", "I3"),
variety = c("V1", "V2"),
nitrogen = c("N0", "N40", "N80")
)
data$yield <- rnorm(nrow(data), 1200, 150)
result <- anova_sspd(data,
response = "yield",
main_plot = "irrigation",
sub_plot = "variety",
sub_sub_plot = "nitrogen",
replication = "rep")
Stability Analysis (7 Methods)
data <- expand.grid(
variety = paste0("V", 1:10),
location = paste0("L", 1:5),
rep = 1:3
)
data$yield <- rnorm(nrow(data), 1200, 200)
stability_analysis(data,
genotype = "variety",
environment = "location",
replication = "rep",
trait = "yield",
method = "all")
Unique Features
- First R package with ALL split plot design variations
- Complete SE/CD calculations for every comparison type
- 7 stability analysis methods in single function
- Integrated thermal indices (GDD, HTU, PTU, HUE)
- Crop growth analysis (CGR, RGR, NAR, LAI)
- Publication-ready formatted output
Citation
Rolaniya, L.K., Jat, R.L., Punia, M., and Choudhary, R.R. (2026). aridagri:
Comprehensive Statistical Tools for Agricultural Research.
R package version 2.0.3. https://github.com/lalitrolaniya/aridagri
Authors
Lalit Kumar Rolaniya (Maintainer) Scientist (Agronomy) ICAR-Indian Institute of Pulses Research, Regional Centre, Bikaner, Rajasthan-334006, India ORCID: 0000-0001-8908-1211
Ram Lal Jat Senior Scientist (Agronomy) ICAR-Indian Institute of Pulses Research, Regional Centre, Bikaner, Rajasthan-334006, India ORCID: 0009-0003-4339-0555
Monika Punia Scientist (Genetics & Plant Breeding) ICAR-Indian Institute of Pulses Research, Regional Centre, Bikaner, Rajasthan-334006, India ORCID: 0009-0002-0294-6767
Raja Ram Choudhary Scientist (Agronomy) ICAR-Indian Institute of Groundnut Research, Regional Research Station, Bikaner, Rajasthan-334006, India
Acknowledgments
The authors gratefully acknowledge ICAR-Indian Institute of Pulses Research, Kanpur for providing necessary support and infrastructure for the development of this package.
License
GPL-3
Contributing
Contributions are welcome! Please feel free to submit issues or pull requests.