Pipeline for Suplemental code:

1. run 'read_count_data.R', with inputs: 
Supplemental_Table_S10 (counts combined)
Supplemental_Table_S11 (counts strict cer)
Supplemental_Table_S12 (counts strict par)
Supplemental_table_S3 (summerizedExperiment)
Outputs:
count_per_gen.rds
sumExp.rds
2. run 'compare_by_experiment.Rmd'
3. run 'pipeline_generate_files.m'