metan: an R package for multi-environment trial analysis

By Tiago Olivoto, Alessandro Dal’Col Lúcio. bioRxiv, 2020

804 citations recorded by the source corpus.

Multi-environment trials (MET) are crucial steps in plant breeding programs that aim increasing crop productivity to ensure global food security. The analysis of MET data requires the combination of several approaches including data manipulation, visualization, and modeling. As new methods are proposed, analyzing MET data correctly and completely remains a challenge, often intractable with existing tools. Here we describe the metan R package, a collection of functions that implement a workflow-based approach to (a) check, manipulate and summarise typical MET data; (b) analyze individual environments using both fixed and mixed-effect models; (c) compute parametric and non-parametric stability statistics; (c) implement biometrical models widely used in MET analysis; and (d) plot typical MET data quickly. In this paper, we present a summary of the functions implemented in metan and how they integrate into a workflow to explore and analyze MET data. We guide the user along a gentle learning curve and show how adding only a few commands or options at a time, powerfull analyzes can be implemented. metan offers a flexible, intuitive, and richly documented working environment with tools that will facilitate the implementation of a complete analysis of MET data sets.

Subfields: Genetics, Plant Science

View Paper: https://www.semanticscholar.org/paper/69a2211e3a67015aeaf72612528008fd40d8bfa9

How researchers see this paper

The researchers whose trusted networks rank it highest, strongest advocate first. Every researcher gets a different order.

In Genetics

1. Juan Burgueño
2. Jose Crossa
3. Tiago Olivoto
4. G. de los Campos

In Plant Science

1. Juan Burgueño
2. Jose Crossa
3. M. Vargas
4. Tiago Olivoto
5. G. de los Campos

Citations in the corpus

• A Framework for Identification of Stable Genotypes Basedon MTSI and MGDII Indexes: An Example in Guar (Cymopsis tetragonoloba L.) (2021, methodology): “The functions waasb and mtsi of the “metan” package [29] were used to compute the MTSI index.”
• META-R: A software to analyze data from multi-environment plant breeding trials (2020, methodology): “Most or all of these analyses can be obtained from ANOVA performed in other software, for instance, metan [10] is an R-package that offers a great variety of analyses for METs.”