Stemloc

Stemloc

Stemloc is a program for pairwise RNA structural alignment based on probabilistic models of RNA structure known as Pair stochastic context-free grammars. Stemloc implements constrained versions of the Sankoff algorithms for simultaneous structure prediction and sequence alignment of multiple RNAs.

Stemloc can be downloaded as part of the [http://biowiki.org/DART DART software package] . It accepts input files in either FASTA or Stockholm format.

References

* Holmes I. (2005) [http://www.biomedcentral.com/1471-2105/6/73 Accelerated probabilistic inference of RNA structure evolution] . BMC Bioinformatics. 2005 Mar 24;6:73.

External links

* Stemloc [http://biowiki.org/StemLoc homepage] and [http://biowiki.org/StemlocTutorial tutorial]


Wikimedia Foundation. 2010.

Игры ⚽ Поможем решить контрольную работу

Look at other dictionaries:

  • Stochastic context-free grammar — A stochastic context free grammar (SCFG; also probabilistic context free grammar, PCFG) is a context free grammar in which each production is augmented with a probability. The probability of a derivation (parse) is then the product of the… …   Wikipedia

  • RNA structure — The functional form of single stranded RNA molecules frequently requires a specific tertiary structure. The scaffold for this structure is provided by secondary structural elements which are hydrogen bonds within the molecule. This leads to… …   Wikipedia

  • Стохастическая контекстно-свободная грамматика — Связать? …   Википедия

  • Nucleic acid structure prediction — This article is about the computational prediction of nucleic acid structure. For experimental methods, see Nucleic acid structure determination. Nucleic acid structure prediction is a computational method to determine nucleic acid secondary and… …   Wikipedia

Share the article and excerpts

Direct link
… Do a right-click on the link above
and select “Copy Link”