Coursebooks 2017-2018

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Experimental design and data analysis with R

ENG-467

Lecturer(s) :

Schlaepfer Rodolphe
Vacat .

Language:

English

Summary

Linking together the elements of a research project. Basic principles of designing experiments and observational studies. Statistical model of Multiple regressions and Analysis of variance, as special cases of the general linear model, Data analysis with the statistical software R.

Content

  1. Introduction (goal of the course, prerequisite, what is R)
  2. An example: The Jura Gradient Experiment
  3. An introduction to basic coding in R
  4. Designing experiments and observational studies (Basic Principles, Power Analysis and Number of Replications, Some Types of Experimental Designs, Some Types of Sampling Designs for Observational Studies)
  5. Statistical models (linear models, linear models with quantitative explanatory variables, linear models with categorical explanatory variables)
  6. Principles of data analysis (Hypotheses to be tested, analysis of multiple regression, analysis of ANOVA, including Model Checking)
  7. Analysing experiments (completely randomized experiment with one and two factors, complete randomized blocks, split-plot experiments)
  8. Analysing observational studies (simple random sampling, systematic sampling, stratified sampling)
  9. Special Issues (model assumptions not fulfilled, unbalanced designs, pseudo-repetitions, repeated measures, mixed effects, effect size, power of an experiment, contrasts, multivariate situations)

Keywords

Experimental design, sampling design, linear models, multiple regression, analysis of variance, data analysis, statistical software R.

Learning Prerequisites

Required courses

Probability and Statistics, Prof. Victor Panaretos, Bachelor semester 2" or another course with a similar content (statistical distributions, expected value, error types one and two, parameter estimation, testing hypotheses, statistical significance, simple linear regression, one way analysis of variance)

Recommended courses

Ecologie numérique, ENV 521, Dr Vincent Jassey, Prof. Alexandre Buttler

Important concepts to start the course

Scientific method: from research questions to reporting, through data collection and data analysis

Learning Outcomes

Transversal skills

Teaching methods

Lectures

Exercises

Expected student activities

attendance at the lectures

completing exercises

reading written material (given documents, documents on the web)

Assessment methods

Written exam during the examination period

Supervision

Office hours Yes
Assistants Yes

Resources

Bibliography

- Borcard, Daniel; Gillet, François; Legendre, Pierre. 2011. Numerical Ecology with R. Springer.

- Cochran William G. 1977. Sampling Techniques. Third Edition. Wiley. 474 pp.

Note: This edition is freely available on internet. Cochran?s book is one of the fundamental work on sampling.

- Crawley Michael J. 2015. The R Book. Second Edition. Wiley. 1051 pp.

Note: The first edition of this book is freely available on internet.

- Crawley Michael J. Statistics. An introduction using R. Second Edition. 359 pp. Is a it-ebook (see www.it-ebooks.info). Free available on Internet

- Davison A. C. & Kuonen, D. (2013). Probabilités et Statistique pour Sciences de l'Environnement.Polycopié disponible à la "Librairie Polytechnique" de l'EPFL. (Edition 2013 modifiée par V.M. Panaretos).

- Lawson John. 2015. Design and Analysis of Experiments with R. CRC Press. 506 pp.

- Montgomery Douglas C. 2013. Design and Analysis of Experiments. Eights Edition. Wiley. 730 pp.

Note: Montgomery is one of the leading experts in Experimental Design. The fifth edition of is book is freely available on Internet.

 - Quinn Gerry P., Keough Michael J. 2002. Experimental Design and Data Analysis for Biologists. Cambridge. 537 pp., is freely available on Internet

 - Sutherland William J. 2006. Ecological Census Techniques. A handbook. Second Edition. Cambridge

 

Ressources en bibliothèque
Websites

In the programs

Reference week

 MoTuWeThFr
8-9     
9-10     
10-11     
11-12     
12-13     
13-14     
14-15     
15-16     
16-17     
17-18     
18-19     
19-20     
20-21     
21-22     
Under construction
 
      Lecture
      Exercise, TP
      Project, other

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  • Autumn semester
  • Winter sessions
  • Spring semester
  • Summer sessions
  • Lecture in French
  • Lecture in English
  • Lecture in German