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Difference between revisions of "SW:BLAST"

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(Created page with "== BLAST & BLAST+ == GCATemplates available: [https://github.tamu.edu/cmdickens/GCATemplates/blob/master/templates/ada/run_blastx_2.2.31_ada.sh yes (blastx...")
 
(BLAST & BLAST+)
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== BLAST & BLAST+ ==
 
== BLAST & BLAST+ ==
[[SW:GCATemplates|GCATemplates]] available: [https://github.tamu.edu/cmdickens/GCATemplates/blob/master/templates/ada/run_blastx_2.2.31_ada.sh yes (blastx)]
+
[[SW:GCATemplates|GCATemplates]] available: [https://github.tamu.edu/cmdickens/GCATemplates/blob/master/templates/ada/run_blastx_2.2.31_ada.sh ada (blastx)]
  
 
   module spider BLAST
 
   module spider BLAST

Revision as of 16:45, 9 January 2019

BLAST & BLAST+

GCATemplates available: ada (blastx)

 module spider BLAST

or

 module spider BLAST+


BLAST databases 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