Difference between revisions of "Figaro"

From AMOS WIKI
Jump to: navigation, search
(Added a link to the download site. Hello again btw :-))
 
Line 3: Line 3:
 
  |}
 
  |}
  
Figaro is a software tool for identifying and removing the vector from raw DNA sequence data without prior knowledge of the vector sequence.  By statistically modeling short oligonucleotide frequencies within a set of reads, Figaro is able to determine which DNA words are most likely associated with vector sequence.  For a description of Figaro's algorithms please see our [http://bioinformatics.oxfordjournals.org/cgi/content/full/24/4/462 paper].  You may download Figaro individually, or as part of the AMOS package at Sourceforge.    
+
Figaro is a software tool for identifying and removing the vector from raw DNA sequence data without prior knowledge of the vector sequence.  By statistically modeling short oligonucleotide frequencies within a set of reads, Figaro is able to determine which DNA words are most likely associated with vector sequence.  For a description of Figaro's algorithms please see our [http://bioinformatics.oxfordjournals.org/cgi/content/full/24/4/462 paper].  You may download Figaro individually, or as part of the [http://sourceforge.net/project/showfiles.php?group_id=134326 AMOS package at SourceForge].
  
  

Latest revision as of 17:35, 28 October 2009

FigaroLogo.png

Figaro is a software tool for identifying and removing the vector from raw DNA sequence data without prior knowledge of the vector sequence. By statistically modeling short oligonucleotide frequencies within a set of reads, Figaro is able to determine which DNA words are most likely associated with vector sequence. For a description of Figaro's algorithms please see our paper. You may download Figaro individually, or as part of the AMOS package at SourceForge.


Contributors.


Requirements

Figaro is released as C++ and Perl source code and should work on any Unix system. We strongly encourage users to quality trim their data as well using a program such as Lucy. Lucy can be downloaded here.


Documentation and Data


Keywords.

vector trimmer, vector clipping, vector trimming, open source, AMOS.