R for Photobiology: Theory and recipes for common calculations

Pedro J. Aphalo, Thomas Matthew Robson, Andreas Albert, Titta Katariina Kotilainen

Research output: Book/ReportBookScientificpeer-review


This handbook describes how to use R as a tool for doing calculations related to research in photobiology. Photobiology is the branch of science that studies the interactions of living organisms with visible and ultraviolet radiation. Many of the most frequently used calculations are either related to the characterization of radiation and of the responses of organisms to radiation. We emphasize the first of these aspects as in many cases the characterization of the responses of organisms to radiation differ little from the characterization of similar responses elicited through other physical or chemical stimuli.Many of the examples in this handbook make use of the `r4photobiology' suite of R packages, but the use of other packages is also described.

The text and examples assume some familiarity with R and/or programming, but guides those readers new to the language to tutorials and books that will help them learn enough to follow, use and modify the code examples included in the book. The book is structured in five parts: I Theory behind calculations, II Tools used for calculations, III Cookbook of calculations, IV Data acquisition and exchange and V Catalogue of example data.

In many of the examples we use of a suite of R packages developed by Pedro J. Aphalo and described at http://r4photobiology.info/. At the moment the five most important packages in the suite are available through CRAN and the remaining ones through a CRAN-like repository at http://r4photobiology.info/R/.
Original languageEnglish
Number of pages376
Publication statusE-pub ahead of print - 2019
MoE publication typeC1 Scientific book

Bibliographical note

ISBN will be assigned when final version completed (2017)

Fields of Science

  • 1183 Plant biology, microbiology, virology
  • photobiology
  • 114 Physical sciences
  • optics
  • radiation measurement
  • 115 Astronomy, Space science
  • Day length
  • sun position
  • solar radiaitiom
  • 1184 Genetics, developmental biology, physiology
  • photobiology

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