Hi everyone!

Sorry for this noob question, but I just wanted to ask, what is the best practice in the field for publishing RNA sequencing data analysis scripts? Does it usually happen before the publication, or after? Currently I kept the repo as private and the paper is not published yet.
Generally, it doesn't really matter unless you're publishing a custom, novel method where the code is really an integral part of the publication. In such a case, you'd want to keep it private until publication. Otherwise, keeping your random DESeq2 scripts in a public repo isn't going to hurt you or draw much attention, though nobody will care if you keep it private until submission either. 

Just be sure not to include any PHI or sample information in them.