Scripts used for our RNA-binding protein interactome (RBPome) study published in Nucleic Acids Research (https://doi.org/10.1093/nar/gkab490).
analyses: R scripts used to perform analyses and produce figures (mentioned in the folder names).
include: Perl utility functions and R MySQL connection functions.
mysql_tables: MySQL table structures (CREATE statements).
pipeline: Perl scripts used to produce various figures (see "Note" within folders).
scripts: Additional utility Perl scripts.
update: Perl scripts used to fill MySQL tables. "run.pl" is the main script in each folder.
For the Perl scripts, first run "download.pl" to download datasets, followed by "run.pl", the main script in each folder.
Please don't hesitate to contact me/us for assistance with these scripts — they have grown historically as this analysis grew far bigger than originally envisioned and aren't polished, though hopefully they're commented well enough to follow them. Thank you!