Entering edit mode
8.8 years ago
matthewur
▴
30
Hello,
I am trying to figure out where/how I can get a list of database names for use with the -remote command for NCBI standalone BLAST (i.e. -db
[?]). I searched for this topic in the forum and found only one post, and the page that the answer links to no longer exists. Specifically, I want to know the name of the NCBI 16S Microbial rRNA database. Can anyone help me out here? Thanks in advance.
It may be a little late for you, but I ran across the same problem today. I found the name of the database is
rRNA_typestrains/prokaryotic_16S_ribosomal_RNA
. I ran a test on standalone blast like below, which worked fine.Yes, that works! Thanks so much!
Is there any way to find other NCBI database lists like prokaryotic refseq genomes? I tried to find "blastdb.txt" file in NCBI ftp but I couldn't. How did you know the name of specific database?