Prieto_Garcia_et_al_2023

In this repository the R-Scrips and Rmarkdown reports of Prieto-Garcia et al. 2024 are provided.

R-Scripts and Rmarkdown reports have to be executed in the following order:

01_modulizer_output_to_rds.R
02_effect_of_USP39_KD_on_splicing.Rmd
03_get_read_support_for_A5SS_events.R
04_generate_peptide_and_adjusted_SWISSPROT_sequences.Rmd
05_adjust_IDs_for_FAS_analysis.R
06_FASscore_analysis.Rmd

These first rendered HTML-Reports can be accessed at https://mchicken1988.github.io/Prieto_Garcia_et_al_2023/

figure 1 and s4 code

07_modulize_to_regulated_a5ss_rds.R
09_modulize_to_regulated_granges_rds.R
08_modulize_to_unregulated_granges_rds.R
10_figures_1_s4_garcia_et_al_2024.Rmd

the commands for the splicing analysis can be found in

11_majiq_porcession.Rmd