Talk:Wikiomics:BLAST tutorial

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m (blastall switches)
m (BLAST ofspring: new section)
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*'''[[User:Darek Kedra|darked]] 09:43, 12 February 2010 (EST)''':
*'''[[User:Darek Kedra|darked]] 09:43, 12 February 2010 (EST)''':
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== BLAST ofspring ==
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There is a large number of BLAST-like algorithms, trying to i.e. speed up the search by sacrificing sensitivity, or modify it to suit specific tasks, like genome-2-genome comparison.
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Before creating a separate page I will be dumping here such links *'''[[User:Darek Kedra|darked]] 07:39, 18 March 2010 (EDT)''':
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* PLAST : Parallel Local Alignment Search Tool for Database Comparison
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http://www.irisa.fr/symbiose/projects/plast/

Revision as of 06:39, 18 March 2010

What are the parameters to use to limit the number of allignmets produced by blast for each query sequence?

I seem to remember it is '-b xxx' or something....

--Dan 14:21, 15 January 2010 (EST)


You are right, -b is the switch for blastall. Two relevant lines from blastall --help


  -v  Number of database sequences to show one-line descriptions for (V) [Integer]
    default = 500
  -b  Number of database sequence to show alignments for (B) [Integer]
    default = 250
  • darked 09:43, 12 February 2010 (EST):

BLAST ofspring

There is a large number of BLAST-like algorithms, trying to i.e. speed up the search by sacrificing sensitivity, or modify it to suit specific tasks, like genome-2-genome comparison. Before creating a separate page I will be dumping here such links *darked 07:39, 18 March 2010 (EDT):

  • PLAST : Parallel Local Alignment Search Tool for Database Comparison

http://www.irisa.fr/symbiose/projects/plast/

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