BLAST: Difference between revisions
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'''B'''asic '''L'''ocal '''A'''lignment '''S'''earch '''T'''ool, or '''BLAST''', is an | '''B'''asic '''L'''ocal '''A'''lignment '''S'''earch '''T'''ool, or '''[http://en.wikipedia.org/wiki/BLAST BLAST]''', is an algorithm for comparing primary biological sequence information, such as the amino-acid sequences of different proteins or the nucleotides of DNA sequences. A BLAST search enables a researcher to compare a query sequence with a library or database of sequences, and identify library sequences that resemble the query sequence above a certain threshold. Different types of BLASTs are available according to the query sequences. For example, following the discovery of a previously unknown gene in the mouse, a scientist will typically perform a BLAST search of the human genome to see if humans carry a similar gene; BLAST will identify sequences in the human genome that resemble the mouse gene based on similarity of sequence. | ||
== Module file == | == Module file == | ||
Revision as of 22:14, 20 December 2013
Basic Local Alignment Search Tool, or BLAST, is an algorithm for comparing primary biological sequence information, such as the amino-acid sequences of different proteins or the nucleotides of DNA sequences. A BLAST search enables a researcher to compare a query sequence with a library or database of sequences, and identify library sequences that resemble the query sequence above a certain threshold. Different types of BLASTs are available according to the query sequences. For example, following the discovery of a previously unknown gene in the mouse, a scientist will typically perform a BLAST search of the human genome to see if humans carry a similar gene; BLAST will identify sequences in the human genome that resemble the mouse gene based on similarity of sequence.
Module file
The module file can be found in this location:
/cm/shared/apps/WUR/ABGC/modulefiles
<source lang='tcl'>
- %Module1.0#######################################################################
- BLAST+ 2.2.28 modulefile
proc ModulesHelp { } {
puts stderr "\tAdds blast+ v2.2.28 to your environment"
}
module-whatis "Adds blast+ v2.2.28 to your environment"
set blastplus_2228_root /cm/shared/apps/WUR/ABGC/blast/ncbi-blast-2.2.28+/bin/
prepend-path PATH $blastplus_2228_root
</source>
Please note that Maker requires the system tempdir to be in a non-NFS location. To be safe, best to put it in a local disc. For that reason the TMPDIR environment variable gets set to /local.