Thanks, I receive a specific list of NLS from my supervisor and he want to see whether these NLS exist in our list of proteins. Just heard the word NLS first time yesterday and I even have to google it. I happen to be the only one who knows a little bit of R in the lab so that's why thinking of grepl.
Find NLS in list of proteins.
1 answer
Use a proper NLS/signal peptide prediction tool, e.g.: https://www.frontiersin.org/articles/10.3389/fgene.2020.607812/full
A grep-like approach will only really work if you are looking for very specific canonical peptides, or you'll have to get your hands dirty with fuzzy matching and regex to capture variance.
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I just did simple test using grep function in R. But there must be available R package or bioresources or something outthere that I don't know.