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(BLAST & BLAST+)
(BLAST & BLAST+)
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The version 5 BLAST nr and nt databases are in the following directory. Let us know if you need others.
 
The version 5 BLAST nr and nt databases are in the following directory. Let us know if you need others.
 
<pre>
 
<pre>
/scratch/datasets/blastdbv5/nr
+
/scratch/datasets/blastdbv5/nr_v5
  
/scratch/datasets/blastdbv5/nt
+
/scratch/datasets/blastdbv5/nt_v5
 
</pre>
 
</pre>
  
 
[[ Category:SW ]] [[ Category: Bioinformatics ]]
 
[[ Category:SW ]] [[ Category: Bioinformatics ]]

Revision as of 13:47, 26 March 2019

BLAST & BLAST+

GCATemplates available: ada (blastx)

 module spider BLAST

or

 module spider BLAST+


BLAST version 4 databases (pre BLAST+ 2.8.1) such as nr and nt can be found here (BLAST+ uses the same databases):

 /scratch/datasets/blast

Sample BLAST+ command:

 blastx -query my_protein_sequences.fasta -db /scratch/datasets/blast/nr -outfmt 10 -out my_protein_sequences_nr_blastout.csv

To see the current version of the nr or nt database use the following command:

module load BLAST/2.2.26-x64-linux
fastacmd -d /scratch/datasets/blast/nr -I

BLAST+ version 2.8.1 supports the newest version 5 of the BLAST database which allows limiting a search based on taxonomy.

module load BLAST+/2.8.1-intel-2017b

The version 5 BLAST nr and nt databases are in the following directory. Let us know if you need others.

/scratch/datasets/blastdbv5/nr_v5

/scratch/datasets/blastdbv5/nt_v5