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As a direct problem solver, we can utilize RNAfold 2 and CentroidFold 5 in MODENA.
The performance evaluation results for the Rfam dataset are summarized in Table 1, where RNAfold was used as a direct problem solver of MODENA.
Since more accurate RNA folding algorithms based on new paradigms, such as Sfold 15 and CentroidFold, 5 have been proposed, an RNA inverse folding algorithm should also has an option to use a new RNA folding program as a direct problem solver.
In RNA inverse folding, a direct problem solver is iteratively used to predict the structure of the designed sequence, which is necessary to compare the structure of the designed sequence with the target structure; eg, RNAinverse, RNA-SSD and INFO-RNA use a fold function of Vienna RNA Package 2 as a direct problem solver.
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Instead of determining the free surface position as in the case of a direct problem, we focus on the inverse problem, where for a specific free surface shape, we find the corresponding bottom topography which causes the free surface profile.
This procedure integrates a direct problem solver with a simplified conjugate-gradient method as the optimizer.
In this context the parabolic problem (1) will be referred to as a direct (forward) problem with the inputs g ( x ) and a ( x, t ).
In this context, parabolic problem (1) will be referred to as a direct (forward) problem, with the inputs g ( x ), q and p ( t ).
In this context, the parabolic problem (1) will be referred to as a direct (forward) problem with the inputs g ( x ), k ( x ) and f ( t ).
In this context, parabolic problem (1) will be referred to as a direct (forward) problem with the inputs g ( x ) and k ( x ).
In this context, parabolic problem (1) will be referred to as a direct (forward) problem, with the inputs (g(x)), (k(x)), q, and (p(t)).
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Justyna Jupowicz-Kozak
CEO of Professional Science Editing for Scientists @ prosciediting.com