free2bind: Difference between revisions

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{{See|Help:Bioinformatics Tools|tools}}
{{See|Help:Bioinformatics Tools|tools}}




== Short Description ==
== Short Description ==
{{UserContentHelp}}
{{UserContentHelp}}
Free software for motif finding/prediction based on energetics of a two sequences binding.  Can be used for RNA or DNA.
Free software for motif finding/prediction based on free energy calculations.  Run as perl scripts to that call the package.  Can be used for motif prediction in RNA or DNA and is capable of converting between the two, default is RNA.
Primary author Joshua Starmer.
Primary author Joshua Starmer.


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== User notes ==
== User notes ==
Adding -h after the perl script will bring up what equates to the man page.
Usage information and options can be viewed by type the name of the script followed by -h.
<pre>
$ perl free_align.pl -h   
</pre>


== See Also ==
== See Also ==

Latest revision as of 15:25, 7 July 2010

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Short Description

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Free software for motif finding/prediction based on free energy calculations. Run as perl scripts to that call the package. Can be used for motif prediction in RNA or DNA and is capable of converting between the two, default is RNA. Primary author Joshua Starmer.

Links

Links to sites that run the software or where it can be obtained

Obtainable on SourceForge

Requirements

Hardware/Software requirements, if applicable

User notes

Usage information and options can be viewed by type the name of the script followed by -h.

$ perl free_align.pl -h    

See Also

References

See Help:References for how to manage references in EcoliWiki. [1]

  1. ↑ Starmer, J et al. (2006) Predicting Shine-Dalgarno sequence locations exposes genome annotation errors. PLoS Comput. Biol. 2 e57 PubMed