Difference between revisions of "NCBI BLAST+"
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Run <code>module spider {{#var:app}}</code> to find out what environment modules are available for this application. | Run <code>module spider {{#var:app}}</code> to find out what environment modules are available for this application. | ||
==System Variables== | ==System Variables== | ||
| − | * HPC_{{ | + | * HPC_{{uc:{{#var:app}}}}_DIR - installation directory |
| − | * HPC_{{ | + | * HPC_{{uc:{{#var:app}}}}_BIN - executable directory |
| − | * HPC_{{ | + | * HPC_{{uc:{{#var:app}}}}_DOC - documents directory |
* BLASTDB - BLAST database location | * BLASTDB - BLAST database location | ||
<!--Configuration--> | <!--Configuration--> | ||
Revision as of 21:23, 6 December 2019
Description
The Basic Local Alignment Search Tool (BLAST) is the most widely used sequence similarity tool. There are versions of BLAST that compare protein queries to protein databases, nucleotide queries to nucleotide databases, as well as versions that translate nucleotide queries or databases in all six frames and compare to protein databases or queries. PSI-BLAST produces a position-specific-scoring-matrix (PSSM) starting with a protein query, and then uses that PSSM to perform further searches. It is also possible to compare a protein or nucleotide query to a database of PSSM’s.
Environment Modules
Run module spider ncbi_blast to find out what environment modules are available for this application.
System Variables
- HPC_NCBI_BLAST_DIR - installation directory
- HPC_NCBI_BLAST_BIN - executable directory
- HPC_NCBI_BLAST_DOC - documents directory
- BLASTDB - BLAST database location