BIOL 6090



Last Updated November 28, 2019

Please report any problems here:

khyrenbach (at) hpu (dot) edu


(Last Updated: Aug 16)


Dr. David Hyrenbach


AC 249, HLC

EMSB, Oceanic Institute


(808) 236-3563

Office Hours:

HLC: Tu & Th; 10:45 - 12:00

OI: Tu & Th; 12:00 - 13:00


or by appointment at EMSB, OI



We will use two texts and a free online resource:


Discovering Statistics Using R, 2012, Andy Field, Jeremy Miles and Zoe Field. Sage Publications, Thousand Oaks (USA)

ISBN: 9781446200469


A Primer of Ecological Statistics, 2004, Nicholas Gotelli and Aaron Ellison, Sinauer Associates Inc., Sunderland

ISBN: 0878932690

(On Reserve, Atherton Library)


Download a free PDF andthe textbook’s source files at:


Updated: August 19th, 2017.
This textbook is available under a Creative Commons License.

(Available freely on line)



Course Readings

The PDFs posted on this page are for class use only.

Please do not distribute.



Week 1 - Course Introduction and Foundations

Task for this Week: Review The Scientific Method


Lecture 1: Tuesday Aug. 27


Introduction - Three Statistical Frameworks


Lecture 2: Thursday Aug. 29


The Scientific Method & Hypothesis Testing



Assigned Reading:

Platt J.R. (1964)

Strong inference. Science, 146: 347-353


(61 Kb)

Assigned Reading:

Quinn J.F., & Dunham A.E. (1983)

On hypothesis testing in ecology and evolution. The American Naturalist, 122(5): 602-617


(2 Mb)

Extra Reading:

O'Donohue, W., & Buchanan, J.A. (2001)

The weaknesses of strong inference. Behavior & Philosophy, 29: 1-20



Week 2 - Simple and Conditional Probability

Task for this Week: Review Simple and Conditional Probability



Lecture 3: Tuesday Sept. 3


Observations and Variables



Assigned Reading:

Diamond, J. (1988).
Why cats have nine lives.
Nature 332 (6165): 586–587.

Extra Reading:

Lewison, R.L., Soykan, C.U., & Franklin J. (2009).
Mapping the bycatch seascape: multispecies and
multi-scale spatial patterns of fisheries bycatch.
Ecological Applications 19(4): 920–930.


(543 Kb)


Lecture 4: Thursday Sept. 5


Conditional Probability (and Bayesian Statistics)




Assigned Reading:

Silver, N. (2012). Less and less and less wrong. Pp. 232 - 261.

In: The Signal and the Noise. Penguin Press, New York.

Extra Reading:

Marcus, G., & Davis, E. (2013). What Nate Silver Gets Wrong.

The New Yorker.


(32 Kb)

Extra Reading:

Is God Bayesian ? Unwim VS. Wiggins

(88 Kb)



Week 3 - Statistical Inference

Task for this Week: Making Statistical Predictions



Lecture 5: Tuesday Sept. 10


Extra Reading:

Fairfield-Walsh, C. Garrison, L. 2007. Estimated Bycatch of Marine Mammals and Turtles in the U.S. Atlantic Pelagic Longline Fleet During 2006. NOAA Technical Memorandum NOAA NMFS-SEFSC-560: 54 p.

(883 Kb)



Lecture 6: Thursday Sept. 12



Assigned Reading:

Silver, N. (2012). How to drown in 3 feet of water. Pp. 176 - 203.

In: The Signal and the Noise. Penguin Press, New York.



Week 4 - R & Probability Distributions

Task for this Week: Working with Probability Distributions



Lecture 7: Tuesday Sept. 17


QUIZZ#1 (Hypotheses, Sampling and Probability)


Statistical Inference and Reliability


Intro to Graphs in Rcmdr




Lecture 8: Thursday Sept. 19


Estimation and Statistical Modelling


Assigned Reading:

Silver, N. (2012). Desperately Seeking Signal. Pp. 142 - 175.

In: The Signal and the Noise. Penguin Press, New York.




Week 5 - Parametric Assumptions

Task for this Week: Assumptions and Data Transformations


Lecture 9: Tuesday Sept. 24


Probability Distributions


Intro to Advanced Graphs in R


Assigned Reading:

Limbert, E., Stahel, W.A., & Abbt, M. (2001) Log-normal Distributions across the Sciences: Keys and Clues. Bioscience 51:5: 341-352.


(556 Kb)



Lecture 10: Thursday Sept. 26


Statistical Assumptions


MusicFestival Dataset


Week 6 - Assessing Normality

Task for this Week: Data Transformations


Lecture 11: Tuesday Oct. 1



RExam Dataset



Lecture 12: Thursday Oct. 3


QUIZZ#2 (Estimation: Central Tendency / Variability and Probability Distributions)



Data Transformations


Week 7 - Using Statistical Models to Test Hypotheses

Task for this Week: Start Exploring Statistical Models


Lecture 13: Tuesday Oct. 8


Fitting Models: Intro to Correlation


Exam Anxiety Dataset


Lecture 14: Thursday Oct. 10

Week 8 - Correlation and Regression

Task for this Week: Explore Correlation and Regression



Lecture 15: Tuesday Oct. 15


Simple Linear Regression


AlbumSales1 Dataset



Lecture 16: Thursday Oct. 17


Multiple Linear Regression


AlbumSales2 Dataset



Week 9 - Comparing Two (or more) Means

Task for this Week: Consider Multiple Variables



Lecture 17: Tuesday Oct. 22


Comparing Two Means


SpiderLong Dataset


SpiderWide Dataset


Lecture 18: Thursday Oct. 24


QUIZZ#3 (Assessing Normality and Descriptive Statistics)


Analysis of Variance: Theory & Implementation



Week 10 - Comparing Two (or more) Means

Task for this Week: Extensions of ANOVA



Week 11 - ANOVA Extensions

Task for this Week: Continue Exploring ANOVA




Lecture 21: Tuesday Nov. 5

Repeated Measures ANOVA

longBush Dataset



Lecture 22: Thursday Nov. 7


QUIZ#4 (Correlation and Regression)

Week 12 - Analyzing Categorical Data

Task for this Week: Explore Other Statistical Tests



Lecture 23: Tuesday Nov. 12

Lecture 24: Thursday Nov. 14

Eel Dataset



Week 13 - Explore Other Statistical Applications

Task for this Week: Explore Other Statistical Concepts



Lecture 25: Tuesday Nov. 19

Lecture 26: Thursday Nov. 21




Statistical Power


Extra Reading:

Dayton, P.K. (1998) Reversal of the burden of proof in fisheries management. Science 279 (5352): 821-822.


(655 Kb)

Extra Reading:

Benjamin, D.J. et al. (2017) Redefine Statistical Significance. PsyArXiv, 22 July 2017. Web.


(7.1 Mb)

Extra Reading:

Unreliable Research. trouble at the lab. The Economist, October 19th, 2013


(217 Kb)


Week 14 - Wrap-Up


Task for this Week: Wrap Up


Lecture 27: Tuesday Nov. 26



Review & Wrap-Up




Thursday Nov. 28


NO CLASS - Thanksgivings


Week 15 - Finals' Week

Tuesday Dec. 3


(9.00 - 12.00)




Van Hall







Friday Dec. 6


Submit Project Write-up via Email



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Week 13 - Other Applications