Difference between revisions of "BLAST"
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* '''sequence filtering tools''': segmasker, dustmasker, windowmasker | * '''sequence filtering tools''': segmasker, dustmasker, windowmasker | ||
== Using BLAST | == Using BLAST == | ||
If you want to find out more about BLAST on the HPC Cluster, you can use the command | If you want to find out more about BLAST on the HPC Cluster, you can use the command | ||
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Always remember: this command is case sensitive! | Always remember: this command is case sensitive! | ||
== Using BLAST with the HPC Cluster == | |||
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== Documentation == | == Documentation == | ||
Revision as of 08:16, 20 February 2017
Introduction
In bioinformatics, BLAST (Basic Local Alignment Search Tool) is an algorithm for comparing primary biological sequence information, such as the amino-acid sequences of 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.
Installed version
The currently installed version is 2.2.26 and version 2.6.0.
Available Commands
BLAST offers three categories of applications:
- search tools: blastn, blastp, blastx, tblastx, tblastn, psiblast, rpsblast, rpstblastn
- BLAST database tools: makeblastdb, blastdb_aliastool, makeprofiledb, blastdbcmd
- sequence filtering tools: segmasker, dustmasker, windowmasker
Using BLAST
If you want to find out more about BLAST on the HPC Cluster, you can use the command
module spider blast
This will show you basic informations e.g. a short description and the currently installed version.
To load the desired version of the module, use the command, e.g.
module load BLAST/2.6.0-Linux_x86_64
Always remember: this command is case sensitive!
Using BLAST with the HPC Cluster
123
Documentation
The full documentation can be found here.
Direct link to the command line manual (PDF viewer required): BLAST® Command Line Applications User Manual
