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 == | ||
The module file can be found in this location: | The module file can be found in this location: | ||
/cm/shared/ | /cm/shared/modulefiles/SHARED/ | ||
<source lang='tcl'> | <source lang='tcl'> | ||
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module-whatis "Adds blast+ v2.2.28 to your environment" | module-whatis "Adds blast+ v2.2.28 to your environment" | ||
set blastplus_2228_root /cm/shared/apps/ | set blastplus_2228_root /cm/shared/apps/SHARED/blast/ncbi-blast-2.2.28+/bin/ | ||
prepend-path PATH $blastplus_2228_root | prepend-path PATH $blastplus_2228_root | ||
</source> | </source> | ||
== Installation details == | |||
Installed from pre-compiled binaries through link on the [http://www.repeatmasker.org/RMBlast.html RepeatMasker homepage]. | |||
== See also == | == See also == | ||
* [[Globally_installed_software | Globally installed software]] | |||
* [[ABGC_modules | ABGC specific modules]] | |||
== External links == | == External links == | ||
* [http:// | * [http://blast.ncbi.nlm.nih.gov/Blast.cgi Blast homepage] | ||
* [http:// | * [http://en.wikipedia.org/wiki/BLAST Blast on Wikipedia] | ||
* [http://www.ncbi.nlm.nih.gov/books/NBK1763/#CmdLineAppsManual.Cookbook Blast Cookbook] | |||
Latest revision as of 09:55, 15 March 2014
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/modulefiles/SHARED/
<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/SHARED/blast/ncbi-blast-2.2.28+/bin/
prepend-path PATH $blastplus_2228_root
</source>
Installation details
Installed from pre-compiled binaries through link on the RepeatMasker homepage.