Code and data for Plant Terminators STARR-seq
Library Generation: Code to generate the library is in Final_script.sh in GenerateLibrary Folder. It calls several R scripts and python scripts as helpers.
STARR-seq Analysis: Tobacco and Protoplasts Analysis R markdown files contain how the dataset was generated from subassembly and barcode counts from sequencing. Plots R markdowns contain figures generated in paper.
CNN; model_train+evaluate.ipynb contains model training and testing. in_silico_evolution.ipynb contains using the generated model to evolve synthetic terminators.
-Sayeh Gorjifard