Dear all
I was trying to search a set of spectra against Mus Musculus RefSeq database that contains around 90k protein sequences. I used the following command for indexing :
crux tide-index --digestion partial-digest --missed-cleavages 1 --decoy-format peptide-reverse --mods-spec C+57.02146,2M+15.9949 mus_musculus.fasta db-index
The system on which I am doing this has 4GB RAM and Intel Core i3 2100 3.1 Ghz processor.
Is it even possible to index the database on this system in reasonable time (12hrs or so is fine for me. Should it take more time than that ?). Does it require HPC Cluster for doing such large database indexing or there is some workaround to avoid it ?
Best
Abhishek