Figure repo for Engemann et al 2019 multimodal stacking paper. See https://github.com/OlehKSS/camcan_analysis for the computation the analysis here is building upon.
Making the figures requires a:
- the (non-committed)
./input_datadirectory (obtained from the computation-repository linked above)
- a recent Python install including (>=3.5), ideally Anaconda, with Pandas.
- ideally, a recent R Version (>= 3.0).
I did my best to keep the R dependencies flat, avoiding the tidyverse and other meta-packages. All logic and control flow is written in conservative base R and avoids pipe operators and other high-level syntax. The following visualization packages are needed to run the code in a pure R console:
To build the Markdown and HTML, you will also need:
The dependencies themselves have rather flat dependencies. Ggplot, may depend on a few elements of the tidyverse. However, running the code here should be possible with a rather minimalistic R setup.
Running the code
The prinicipal R scripts begin follow the
figure_*.r pattern and can be
run in the R console or can be compiled through Rmarkdown into HTML outputs.
In both cases, the figure elements are created and written to
To build the figures together with the HTML, please consider the Makefile. You can build a single figure:
Or all figures: