A workflowr project.
analysis contains all code needed to generate figures and supplementary figures. These files have many dependencies in code, data and output.
code contains several files needed to generate data that code for the figures reads in. For the code to generate raw DELFI features from fastq, please see https://github.com/cancer-genomics/reproduce_lucas_wflow
data contains files used by the figures. Of note Data/two_test_plan contains all code needed to generate the models presented in this paper.
In docs, the html files contain SessionInfo listing library versions used to compile the figures.
output contains a few files generated by scripts in code, that are also needed for compiling figures.