Posts Tagged 'ggplot2' 3

Plotting Microtiter Plate Maps

Plotting Microtiter Plate Maps

May 1, 2014

I recently wrote about my workflow for Analyzing Microbial Growth with R. Perhaps the most important part of that process is the plate map, which describes the different experimental variables and where they occur. In the example case, the plate map described which strain was growing and in which environment for each of the wells used in a 96-well microtiter plate. Until recently, I’ve always created two plate maps. The first one is hand-drawn using pens and markers and sat on the bench with me when I started an experiment. By marking the wells with different colors, line types, and whatever other hieroglyphics I decide on, I can keep track of where everything is and how to inoculate the wells.

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Analyzing Microbial Growth with R

Analyzing Microbial Growth with R

April 9, 2014

In experimental evolution research, few things are more important than growth. Both the rate of growth and the resulting yield can provide direct insights into a strain or species’ fitness. Whether one strain with a trait of interest can outgrow (and outcompete) another that possesses a variation of that trait often depends primarily on the fitnesses of the two strains.

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Creating Colorblind-Friendly Figures

Creating Colorblind-Friendly Figures

October 16, 2013

Color is often used to display an extra dimension in plots of scientific data. Unfortunately, everyone does not decode color in exactly the same way. This is especially true for those with color vision deficiency, which affects up to 8 percent of the population in its two most common forms. As a result, it has been estimated that the odds of a given plot reaching a reviewer with some form of color vision deficiency in a group of three males is approximately 22%. Hopefully, when we are creating figures, this number alone is compelling enough to always keep these viewers in mind. The truth, however, is that your figures aren‘t only seen by reviewers: they are seen by a much wider group that includes readers of your paper, members of the audience when you present your work, viewers of your lab‘s website, and potentially many others. As your audience grows, your choices in color become more and more important for effectively communicating your work.

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