R scripts

Data Analysis
Difficult to use
Version 0.9
Fred van Eeuwijk
Marcos Malosetti
Lucia Gutierrez (Biometris, Wageningen University, Netherlands)

R is a freely available language and environment for statistical computing and graphics which provides a wide variety of statistical and graphical techniques: linear and nonlinear modelling, statistical tests, time series analysis, classification, clustering, etc. Using R scripts requires the installation of CRAN and knowledge of R command line language.

A number of R scripts have been created by the IB developers to streamline the analysis of typical plant breeding experiments, including both phenotypic and QTL mapping analyses. Two major types of phenotypic analyses are possible: a) single trial analysis using raw data (eg: trial data), and b) multi-environment analysis or GxE analysis based on the single trial analysis (analysis a) for different environments. With respect to QTL detection, a user can conduct QTL analysis by simple interval mapping (SIM) and composite interval mapping (CIM). The current version only supports QTL mapping in a single environment.

These scripts are available for your use, but please be aware that they are no longer being maintained or supported as development efforts are focused on the Breeding View analytical software in the BMS.

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