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/dports/biology/viennarna/ViennaRNA-2.4.18/RNA-Tutorial/Data/genefinding/rnaz/herpes/x/
H A Drnaz.out9 Consensus MFE: -21.31
41 Consensus MFE: -19.47
71 Consensus MFE: -29.78
100 Consensus MFE: -42.25
129 Consensus MFE: -38.40
158 Consensus MFE: -41.11
187 Consensus MFE: -33.41
216 Consensus MFE: -21.86
245 Consensus MFE: -21.73
274 Consensus MFE: -34.10
[all …]
H A Drnaz_random.out9 Consensus MFE: -20.15
38 Consensus MFE: -51.40
67 Consensus MFE: -40.95
96 Consensus MFE: -53.30
125 Consensus MFE: -50.16
154 Consensus MFE: -41.60
183 Consensus MFE: -45.40
212 Consensus MFE: -45.80
241 Consensus MFE: -54.50
270 Consensus MFE: -52.95
[all …]
/dports/biology/viennarna/ViennaRNA-2.4.18/RNA-Tutorial/Data/rnaz/herpes/x/
H A Drnaz.out9 Consensus MFE: -21.31
41 Consensus MFE: -19.47
71 Consensus MFE: -29.78
100 Consensus MFE: -42.25
129 Consensus MFE: -38.40
158 Consensus MFE: -41.11
187 Consensus MFE: -33.41
216 Consensus MFE: -21.86
245 Consensus MFE: -21.73
274 Consensus MFE: -34.10
[all …]
H A Drnaz_random.out9 Consensus MFE: -20.15
38 Consensus MFE: -51.40
67 Consensus MFE: -40.95
96 Consensus MFE: -53.30
125 Consensus MFE: -50.16
154 Consensus MFE: -41.60
183 Consensus MFE: -45.40
212 Consensus MFE: -45.80
241 Consensus MFE: -54.50
270 Consensus MFE: -52.95
[all …]
/dports/biology/viennarna/ViennaRNA-2.4.18/tests/RNAfold/results/
H A Drnafold.small.cmds.gold4 ud motif 0 detected in MFE structure: [54:56]
5 ud motif 0 detected in MFE structure: [64:66]
16 ud motif 0 detected in MFE structure: [16:18]
33 ud motif 0 detected in MFE structure: [6:8]
34 ud motif 0 detected in MFE structure: [76:78]
53 ud motif 0 detected in MFE structure: [14:16]
62 ud motif 0 detected in MFE structure: [87:89]
72 ud motif 1 detected in MFE structure: [62:64]
73 ud motif 0 detected in MFE structure: [78:80]
85 ud motif 0 detected in MFE structure: [74:76]
[all …]
/dports/biology/viennarna/ViennaRNA-2.4.18/doc/latex/
H A Dgroup__mfe.tex1 \hypertarget{group__mfe}{}\doxysection{Minimum Free Energy (MFE) Algorithms}
2 \label{group__mfe}\index{Minimum Free Energy (MFE) Algorithms@{Minimum Free Energy (MFE) Algorithms…
5 Predicting the Minimum Free Energy (MFE) and a corresponding (consensus) secondary structure.
11 Predicting the Minimum Free Energy (MFE) and a corresponding (consensus) secondary structure.
13 In a nutshell we provide two different flavors for MFE prediction\+:
15 \item \mbox{\hyperlink{group__mfe__global}{Global MFE Prediction}} -\/ to compute the MFE for the e…
19 Each of these flavors, again, provides two implementations to either compute the MFE based on
27 …MFE structures}} are generally agnostic with respect to whether local or global structure predicti…
38 \mbox{\hyperlink{group__mfe__global}{Global MFE Prediction}}
40 \mbox{\hyperlink{group__mfe__window}{Local (sliding window) MFE Prediction}}
[all …]
H A Dgroup__mfe__global.tex2 \label{group__mfe__global}\index{Global MFE Prediction@{Global MFE Prediction}}
62 \index{Global MFE Prediction@{Global MFE Prediction}!vrna\_mfe@{vrna\_mfe}}
63 \index{vrna\_mfe@{vrna\_mfe}!Global MFE Prediction@{Global MFE Prediction}}
124 \index{Global MFE Prediction@{Global MFE Prediction}!vrna\_fold@{vrna\_fold}}
125 \index{vrna\_fold@{vrna\_fold}!Global MFE Prediction@{Global MFE Prediction}}
156 \index{Global MFE Prediction@{Global MFE Prediction}!vrna\_circfold@{vrna\_circfold}}
157 \index{vrna\_circfold@{vrna\_circfold}!Global MFE Prediction@{Global MFE Prediction}}
190 \index{Global MFE Prediction@{Global MFE Prediction}!vrna\_alifold@{vrna\_alifold}}
191 \index{vrna\_alifold@{vrna\_alifold}!Global MFE Prediction@{Global MFE Prediction}}
256 \index{Global MFE Prediction@{Global MFE Prediction}!vrna\_cofold@{vrna\_cofold}}
[all …]
H A Dgroup__mfe__window__deprecated.tex1 …__window__deprecated}{}\doxysection{Deprecated Interface for Local (Sliding Window) MFE Prediction}
2 …cated Interface for Local (Sliding Window) MFE Prediction@{Deprecated Interface for Local (Sliding…
6 Collaboration diagram for Deprecated Interface for Local (Sliding Window) MFE Prediction\+:
18 \begin{DoxyCompactList}\small\item\em Functions for locally optimal MFE structure prediction. \end{…
30 …cated Interface for Local (Sliding Window) MFE Prediction@{Deprecated Interface for Local (Sliding…
31 …cated Interface for Local (Sliding Window) MFE Prediction@{Deprecated Interface for Local (Sliding…
48 …cated Interface for Local (Sliding Window) MFE Prediction@{Deprecated Interface for Local (Sliding…
49 …cated Interface for Local (Sliding Window) MFE Prediction@{Deprecated Interface for Local (Sliding…
H A Dgroup__mfe__global__deprecated.tex2 …_deprecated}\index{Deprecated Interface for Global MFE Prediction@{Deprecated Interface for Global…
82 \index{Deprecated Interface for Global MFE Prediction@{Deprecated Interface for Global MFE Predicti…
83 …{alifold@{alifold}!Deprecated Interface for Global MFE Prediction@{Deprecated Interface for Global…
115 \index{Deprecated Interface for Global MFE Prediction@{Deprecated Interface for Global MFE Predicti…
116 …ex{cofold@{cofold}!Deprecated Interface for Global MFE Prediction@{Deprecated Interface for Global…
385 the minimum free energy (MFE) in kcal/mol
388 \index{Deprecated Interface for Global MFE Prediction@{Deprecated Interface for Global MFE Predicti…
389 \index{fold@{fold}!Deprecated Interface for Global MFE Prediction@{Deprecated Interface for Global …
418 the minimum free energy (MFE) in kcal/mol
421 \index{Deprecated Interface for Global MFE Prediction@{Deprecated Interface for Global MFE Predicti…
[all …]
H A Dgroup__mfe__window.tex2 \label{group__mfe__window}\index{Local (sliding window) MFE Prediction@{Local (sliding window) MFE …
86 \index{Local (sliding window) MFE Prediction@{Local (sliding window) MFE Prediction}!vrna\_mfe\_win…
123 \index{Local (sliding window) MFE Prediction@{Local (sliding window) MFE Prediction}!vrna\_mfe\_win…
124 …mfe\_window@{vrna\_mfe\_window}!Local (sliding window) MFE Prediction@{Local (sliding window) MFE …
134 Local MFE prediction using a sliding window approach.
153 \index{Local (sliding window) MFE Prediction@{Local (sliding window) MFE Prediction}!vrna\_mfe\_win…
154 …ore@{vrna\_mfe\_window\_zscore}!Local (sliding window) MFE Prediction@{Local (sliding window) MFE …
183 \index{Local (sliding window) MFE Prediction@{Local (sliding window) MFE Prediction}!vrna\_Lfold@{v…
184 \index{vrna\_Lfold@{vrna\_Lfold}!Local (sliding window) MFE Prediction@{Local (sliding window) MFE …
214 \index{Local (sliding window) MFE Prediction@{Local (sliding window) MFE Prediction}!vrna\_Lfoldz@{…
[all …]
H A Dgroup__mfe__backtracking.tex1 \hypertarget{group__mfe__backtracking}{}\doxysection{Backtracking MFE structures}
2 \label{group__mfe__backtracking}\index{Backtracking MFE structures@{Backtracking MFE structures}}
13 Collaboration diagram for Backtracking MFE structures\+:
40 \index{Backtracking MFE structures@{Backtracking MFE structures}!vrna\_backtrack5@{vrna\_backtrack5…
41 \index{vrna\_backtrack5@{vrna\_backtrack5}!Backtracking MFE structures@{Backtracking MFE structures…
51 Backtrack an MFE (sub)structure.
53 This function allows one to backtrack the MFE structure for a (sub)sequence
79 \index{Backtracking MFE structures@{Backtracking MFE structures}!vrna\_BT\_hp\_loop@{vrna\_BT\_hp\_…
80 \index{vrna\_BT\_hp\_loop@{vrna\_BT\_hp\_loop}!Backtracking MFE structures@{Backtracking MFE struct…
96 \index{Backtracking MFE structures@{Backtracking MFE structures}!vrna\_BT\_mb\_loop@{vrna\_BT\_mb\_…
[all …]
H A Dmfe_8h.tex5 Compute Minimum Free energy (MFE) and backtrace corresponding secondary structures from RNA sequenc…
28 \begin{DoxyCompactList}\small\item\em Backtrack an MFE (sub)structure. \end{DoxyCompactList}\end{Do…
29 \begin{Indent}\textbf{ Basic global MFE prediction interface}\par
37 \begin{Indent}\textbf{ Simplified global MFE prediction using sequence(s) or multiple sequence alig…
41 \begin{DoxyCompactList}\small\item\em Compute Minimum Free Energy (MFE), and a corresponding second…
43 \begin{DoxyCompactList}\small\item\em Compute Minimum Free Energy (MFE), and a corresponding second…
45 \begin{DoxyCompactList}\small\item\em Compute Minimum Free Energy (MFE), and a corresponding consen…
47 \begin{DoxyCompactList}\small\item\em Compute Minimum Free Energy (MFE), and a corresponding consen…
49 \begin{DoxyCompactList}\small\item\em Compute Minimum Free Energy (MFE), and a corresponding second…
54 Compute Minimum Free energy (MFE) and backtrace corresponding secondary structures from RNA sequenc…
[all …]
H A Dgroup__subopt__wuchty.tex2 … Structures within an Energy Band around the MFE@{Suboptimal Structures within an Energy Band arou…
46 … Structures within an Energy Band around the MFE@{Suboptimal Structures within an Energy Band arou…
79 … Structures within an Energy Band around the MFE@{Suboptimal Structures within an Energy Band arou…
80 … Structures within an Energy Band around the MFE@{Suboptimal Structures within an Energy Band arou…
126 … Structures within an Energy Band around the MFE@{Suboptimal Structures within an Energy Band arou…
127 … Structures within an Energy Band around the MFE@{Suboptimal Structures within an Energy Band arou…
137 Generate suboptimal structures within an energy band arround the MFE.
170 … Structures within an Energy Band around the MFE@{Suboptimal Structures within an Energy Band arou…
171 … Structures within an Energy Band around the MFE@{Suboptimal Structures within an Energy Band arou…
200 … Structures within an Energy Band around the MFE@{Suboptimal Structures within an Energy Band arou…
[all …]
H A Dgroup__kl__neighborhood__mfe.tex2 …up__kl__neighborhood__mfe}\index{Computing MFE representatives of a Distance Based Partitioning@{C…
86 Variables compound for 2Dfold MFE folding.
147 \index{Computing MFE representatives of a Distance Based Partitioning@{Computing MFE representative…
148 …ol\_TwoD\_t@{vrna\_sol\_TwoD\_t}!Computing MFE representatives of a Distance Based Partitioning@{C…
168 \index{Computing MFE representatives of a Distance Based Partitioning@{Computing MFE representative…
169 …{TwoDfold\_vars@{TwoDfold\_vars}!Computing MFE representatives of a Distance Based Partitioning@{C…
179 Variables compound for 2Dfold MFE folding.
187 \index{Computing MFE representatives of a Distance Based Partitioning@{Computing MFE representative…
188 …rna\_mfe\_TwoD@{vrna\_mfe\_TwoD}!Computing MFE representatives of a Distance Based Partitioning@{C…
313 \index{Computing MFE representatives of a Distance Based Partitioning@{Computing MFE representative…
[all …]
H A Dmfe__window_8h.tex5 Compute local Minimum Free Energy (MFE) using a sliding window approach and backtrace corresponding…
28 \begin{DoxyCompactList}\small\item\em The default callback for sliding window MFE structure predict…
30 \begin{Indent}\textbf{ Basic local (sliding window) MFE prediction interface}\par
34 \begin{DoxyCompactList}\small\item\em Local MFE prediction using a sliding window approach. \end{Do…
38 \begin{DoxyCompactList}\small\item\em Local MFE prediction using a sliding window approach (with z-…
42 \begin{Indent}\textbf{ Simplified local MFE prediction using sequence(s) or multiple sequence align…
46 \begin{DoxyCompactList}\small\item\em Local MFE prediction using a sliding window approach (simplif…
50 \begin{DoxyCompactList}\small\item\em Local MFE prediction using a sliding window approach with z-\…
61 Compute local Minimum Free Energy (MFE) using a sliding window approach and backtrace corresponding…
/dports/biology/viennarna/ViennaRNA-2.4.18/RNA-Tutorial/Data/genefinding/rnaz/human/x/
H A Drnaz.out8 Mean single sequence MFE: -14.44
9 Consensus MFE: -5.69
50 Consensus MFE: -19.76
91 Consensus MFE: -18.47
132 Consensus MFE: -18.38
173 Consensus MFE: -21.31
214 Consensus MFE: -17.72
255 Consensus MFE: -17.72
296 Consensus MFE: -24.86
337 Consensus MFE: -17.57
[all …]
/dports/biology/viennarna/ViennaRNA-2.4.18/RNA-Tutorial/Data/rnaz/human/x/
H A Drnaz.out8 Mean single sequence MFE: -14.44
9 Consensus MFE: -5.69
50 Consensus MFE: -19.76
91 Consensus MFE: -18.47
132 Consensus MFE: -18.38
173 Consensus MFE: -21.31
214 Consensus MFE: -17.72
255 Consensus MFE: -17.72
296 Consensus MFE: -24.86
337 Consensus MFE: -17.57
[all …]
/dports/biology/viennarna/ViennaRNA-2.4.18/doc/refman.include/
H A Dmfe_algorithms.dox4 @brief Computing the Minimum Free Energy (MFE), i.e. the most stable
11 Our library provides fast dynamic programming Minimum Free Energy (MFE)
15 @section circular_folding MFE for circular RNAs
21 @section mfe_algorithm_api MFE Algorithm API
25 - MFE and corresponding secondary structure for single sequences,
26 - consensus MFE structures of sequence alignments, and
27 - MFE structure for two hybridized RNA strands
H A Dexamples_perl5.dox13 - MFE prediction
16 - comparative MFE prediction for sequence alignments
22 - MFE prediction
31 - MFE prediction at different temperature and dangle model
H A Dhelloworld_swig.dox9 Simple MFE prediction for a given sequence
13 Simple MFE prediction for a multiple sequence alignment
24 Simple MFE prediction for a given sequence
28 Simple MFE prediction for a multiple sequence alignment
/dports/finance/ledger/ledger-3.2.1/test/regress/
H A D1D275740.test70 Actif:SV -0,0357 MFE @ 259,100 €
78 Actif:SV -0,0417 MFE @ 321,100 €
82 Actif:SV 1,0204 MFE @ 333,200 €
86 Actif:SV -0,0415 MFE @ 358,800 €
157 Actif:SV -0,0357 MFE @ 259,10 €
165 Actif:SV -0,0417 MFE @ 321,10 €
169 Actif:SV 1,0204 MFE @ 333,20 €
173 Actif:SV -0,0415 MFE @ 358,80 €
/dports/biology/viennarna/ViennaRNA-2.4.18/doc/html/
H A Dgroup__mfe__global.map1 <map id="Global MFE Prediction" name="Global MFE Prediction">
3 <area shape="rect" id="node2" title="Variations of the global Minimum Free Energy (MFE) prediction …
4 …"node3" href="$group__mfe.html" title="Predicting the Minimum Free Energy (MFE) and a correspondin…
5 …group__kl__neighborhood__mfe.html" title="Compute the minimum free energy (MFE) and secondary stru…
H A Dgroup__mfe.map1 <map id="Minimum Free Energy (MFE) Algorithms" name="Minimum Free Energy (MFE) Algorithms">
2 …up__mfe__global.html" title="Variations of the global Minimum Free Energy (MFE) prediction algorit…
3 …html" title="Variations of the local (sliding window) Minimum Free Energy (MFE) prediction algorit…
4 <area shape="rect" id="node3" title="Predicting the Minimum Free Energy (MFE) and a corresponding (…
H A Dgroup__mfe__window.map1 <map id="Local (sliding window) MFE Prediction" name="Local (sliding window) MFE Prediction">
2 …ode1" title="Variations of the local (sliding window) Minimum Free Energy (MFE) prediction algorit…
3 …"node2" href="$group__mfe.html" title="Predicting the Minimum Free Energy (MFE) and a correspondin…
H A Dgroup__kl__neighborhood__mfe.map1 <map id="Computing MFE representatives of a Distance Based Partitioning" name="Computing MFE repres…
3 <area shape="rect" id="node3" title="Compute the minimum free energy (MFE) and secondary structures…
4 …up__mfe__global.html" title="Variations of the global Minimum Free Energy (MFE) prediction algorit…

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