May 042015
 

FFTbor / FFTbor2D 2.0.2

:: DESCRIPTION

FFTbor computes Boltzmann probability for RNA structural neighbors using the fast Fourier transform.

Given an RNA sequence having metastable secondary structures A,B, the program FFTbor2D computes the ensemble free energy E(x,y)=-RT log Z(x,y), taken over all secondary structures having base pair distance x from A,and base pair distance y from B.

::DEVELOPER

Clote Lab

:: SCREENSHOTS

N/A

:: REQUIREMENTS

  • Linux

:: DOWNLOAD

FFTbor2D , FFTbor

:: MORE INFORMATION

Citation:

PLoS One. 2012;7(12):e50506. doi: 10.1371/journal.pone.0050506. Epub 2012 Dec 19.
Using the fast fourier transform to accelerate the computational search for RNA conformational switches.
Senter E1, Sheikh S, Dotu I, Ponty Y, Clote P.

J Math Biol. 2015 Jan;70(1-2):173-96. doi: 10.1007/s00285-014-0760-4. Epub 2014 Feb 12.
RNA folding pathways and kinetics using 2D energy landscapes.
Senter E1, Dotu I, Clote P.

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