Trying to customize plots in R?  This page from the Quick R site provides a great deal of information on customizing plot options, in a much more visual (and less terrifying) format than "?par"

Trying to customize plots in R?  This page from the Quick R site provides a great deal of information on customizing plot options, in a much more visual (and less terrifying) format than "?par"

I stumbled across this paper when looking for survivorship information on different species and it has be a great teaching resource. Mostly I use the subplots of Figure 1 (partially reproduced here) which has a whole bunch of graphs of relative mortality and fertility as a function of age for a wide range of taxa. 

Full Citation: Jones, O. R., Scheuerlein, A., Salguero-Gómez, R., Camarda, C. G., Schaible, R., Casper, B. B., ... & Vaupel, J. W. (2014). Diversity of ageing across the tree of life. Nature, 505(7482), 169-173.

When you go to the Nature site for this paper be sure to check out the "related audio" which has a nice discussion with the authors about the paper. 

Alternative Link: http://izt.ciens.ucv.ve/ecologia/Archivos/ECO_POB%202014/ECOPO2_2014/Jones%20et%20al%202014.pdf

test of tracking a comment.

This is an activity that is based on the data available from the "Survivorship in the Natural World" module. Joshua Adelman, who was a post-doc in the Department of Biological Sciences at the University of Pittsburgh at the time, was the lead developer of this activity. 

Polhill, J. Gary, Parker, Dawn, Brown, Daniel and Grimm, Volker (2008). 'Using the ODD Protocol for Describing Three Agent-Based Social Simulation Models of Land-Use Change'. Journal of Artificial Societies and Social Simulation 11(2)3 <http://jasss.soc.surrey.ac.uk/11/2/3.html>.

Grimm V, Berger U, Bastiansen F, Eliassen S, Ginot V, Giske J, Goss-Custard J, Grand T, Heinz S, Huse G, Huth A, Jepsen JU, Jørgensen C, Mooij WM, Müller B, Pe’er G, Piou C, Railsback SF, Robbins AM, Robbins MM, Rossmanith E, Rüger N, Strand E, Souissi S, Stillman RA, Vabø R, Visser U, DeAngelis DL. 2006. A standard protocol for describing individual-based and agent-based models. Ecological Modelling 198:115-126.

This is a collection of links to the paper, a pre-publication version (in case you can't get past the pay wall), the electronic supplements, and a bonus item. 

As part of the extinction module, students can use the R Shiny app Radiant to explore and visualize the data.  Radiant also has a unique and useful feature for instructors: the ability to automatically generate a report of student workflow.  This allows faculty to follow students' exploration of the data and decision-making processes.  The attached handout (Copy of Student Handout 5) contains the updated instructions for running Radiant on the QUBESHub website and generating a workflow report.

Trying to customize plots in R?  This page from the Quick R site provides a great deal of information on customizing plot options, in a much more visual (and less terrifying) format than "?par"

Just getting started as an R user?  You can first try running R on QUBES Hub here, without installing anything.  Eventually, though you will want to install it on your own computer by downloading it here.  RStudio provides a friendlier interface for using R, and can be downloaded here.  Rstudio requires R to be installed, so start by downloading R.

A free online tutorial for learning basic R commands.  It runs through your browser and does not require you to install R.

This is a great source for basic R functionality like importing and manipulating data.  It also has very helpful information on making graphs (see this page).  

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