synbreed: a framework for the analysis of genomic prediction data using R
| Autor: | Valentin Wimmer, Hans-Jürgen Auinger, Chris-Carolin Schön, Theresa Albrecht |
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| Rok vydání: | 2012 |
| Předmět: |
Statistics and Probability
Electronic Data Processing Genotyping Techniques business.industry Computer science Computational Biology Genomics computer.software_genre Biochemistry Genome Pipeline (software) Computer Science Applications Visualization Computational Mathematics Software Computational Theory and Mathematics Linear Models Computer Simulation Data mining business Molecular Biology computer Genotyping Algorithms |
| Zdroj: | Bioinformatics (Oxford, England). 28(15) |
| ISSN: | 1367-4811 |
| Popis: | Summary: We present a novel R package named synbreed to derive genome-based predictions from high-throughput genotyping and large-scale phenotyping data. The package contains a comprehensive collection of functions required to fit and cross-validate genomic prediction models. All functions are embedded within the framework of a single, unified data object. Thereby a versatile genomic prediction analysis pipeline covering data processing, visualization and analysis is established within one software package. The implementation is flexible with respect to a wide range of data formats and models. The package fills an existing gap in the availability of user-friendly software for next-generation genetics research and education. Availability: synbreed is open-source and available through CRAN http://cran.r-project.org/web/packages/synbreed. The latest development version is available from R-Forge. The package synbreed is released with a vignette, a manual and three large-scale example datasets (from package synbreedData). Contact: chris.schoen@wzw.tum.de Supplementary Information: Supplementary data are available at Bioinformatics online. |
| Databáze: | OpenAIRE |
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