Question: Run BLAST on Linux terminal
2
gravatar for Abdul Rafay Khan
3.5 years ago by
Karachi, PK
Abdul Rafay Khan940 wrote:

Just install BLAST by typing: sudo apt-get install ncbi-blast+

But it says you need to download database into your working directory because it only search the working directory. Is it possible to run blast without downloading the database.

 

linux blast nblast ncbi • 7.8k views
ADD COMMENTlink written 3.5 years ago by Abdul Rafay Khan940

what is "the database" ? the whole 'nr' database ? you can use the 'remote' option, a custom database ? you have to compile it with makeblastdb.

ADD REPLYlink written 3.5 years ago by Pierre Lindenbaum118k

Can you give us the command which failed? You can run BLAST without NCBI databases to align your own sequences against your own databases. 

Please give us more information about the problem. ;)

ADD REPLYlink written 3.5 years ago by glihm590

Check this.

ADD REPLYlink written 3.5 years ago by venu6.0k

After installing you need to configured blast setting.  if you donot want to download the database you can create it as Pierre Lindenbaum suggested with makeblastdb. But it depends on the objectives if you want to do blast against nr, swissprot or other database then you need to download it.

ADD REPLYlink written 3.4 years ago by tcf.hcdg60
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