github repo for Baltimore Biocrew 2020 software
We are a group of high school students working out of Baltimore, Maryland, on the east coast of the United States. We come together from many schools across Maryland and Virginia and work at the Baltimore UnderGround Science Space (BUGSS) lab. We are working on a modification for oceanic algae to make it more easily able to collect iron. Iron is a limiting factor for algal growth in the ocean, and the food web is based on them as well. As iron levels are fluctuating in the ocean and phytoplankton populations are dropping, the food web is stressed. However, there is actually a lot of iron in the oceans, just not in a form accessible to life. Our goal is to bring that iron into a form that the algae can use, bringing balance back to the ocean’s food web.
To show the data collected by the Contributions sub-team of our group, we made two data apps with RStudio's shiny package. The first one shows users the graphs of the growth of Synechococcus CB0101 under different iron concentrations. A user can view the graphs with Secchi Depth measurements or OD measurements. The second app is a calculator that allows users to convert Secchi depth to either OD or cell count based on our measurements of cyanobacteria (Synechococcus CB0101) and yeast (Saccharomyces cerevisiae). A protocol for how we grew and measured Synechococcus CB0101 is available on our wiki.
- Cyanobacterial Growth Under Various Iron Concentrations
- Unit Conversion Calculator for Cyanobacteria and Yeast
The code for the Rmarkdown files that generate the shiny apps can be found in the app folder in this repo.