R

Importing data from a LI-COR photosynthesis meter into R

The LI-6400XT is a portable device used to measure photosynthesis in plant leaves. As you take measurements by pressing a button on the device, they are recorded into memory. In order to keep track of which measurments go with which plants (or experimental treatments), there is an “add remark” option where you can enter sample information before taking measurements. When the data are exported, you get a series of .

Quantifying leafhopper damage with automated supervised classification

As part of my fieldwork in China, I collected harvested tea leaves that were damaged by the tea green leafhopper. I want to quantify the amount of leafhopper damage for each harvest. I was able to find several solutions for quantifying holes in leaves or even damage to leaf margins, but typical leafhopper damage is just tiny brown spots on the undersides of leaves. I did find some tutorials on using ImageJ to analyze diseased area on leaves, but found that the leafhopper damage spots were too small and too similar in color to undamaged leaves for these tools to work reliably and be automated.

Making a website in RStudio

I’ve always thought I should eventually have a professional website for job hunting, but recently I’ve realized that it would be nice to have somewhere to collect my thoughts and contributions all in one place. Before having a website of my own, I generally shared updates and thoughts on Twitter and on other people’s blogs, which I will still continue to do, but having everything I do in one place seems like a good idea.

[poster] Generating and analyzing metabolomic data from tea plant volatiles