binaries/src/ViennaRNA/doc/latex/structpair__info.tex

   1 \hypertarget{structpair__info}{\section{pair\-\_\-info Struct Reference}
   2 \label{structpair__info}\index{pair\-\_\-info@{pair\-\_\-info}}
   3 }
   4
   5
   6 A base pair info structure.
   7
   8
   9 \subsection*{Data Fields}
  10 \begin{DoxyCompactItemize}
  11 \item
  12 \hypertarget{structpair__info_a7905e17da6a6cc48230ee6205628ed7f}{unsigned \hyperlink{structpair__info_a7905e17da6a6cc48230ee6205628ed7f}{i}}\label{structpair__info_a7905e17da6a6cc48230ee6205628ed7f}
  13
  14 \begin{DoxyCompactList}\small\item\em nucleotide position i \end{DoxyCompactList}\item
  15 \hypertarget{structpair__info_a35665817b5792703ff4325e1bcbe5e21}{unsigned \hyperlink{structpair__info_a35665817b5792703ff4325e1bcbe5e21}{j}}\label{structpair__info_a35665817b5792703ff4325e1bcbe5e21}
  16
  17 \begin{DoxyCompactList}\small\item\em nucleotide position j \end{DoxyCompactList}\item
  18 \hypertarget{structpair__info_af0895ea40ec0c23bfe8aa2c3babf0e80}{float \hyperlink{structpair__info_af0895ea40ec0c23bfe8aa2c3babf0e80}{p}}\label{structpair__info_af0895ea40ec0c23bfe8aa2c3babf0e80}
  19
  20 \begin{DoxyCompactList}\small\item\em Probability. \end{DoxyCompactList}\item
  21 \hypertarget{structpair__info_ab3aa7a54e6976f46e69c6ffcddd0e782}{float \hyperlink{structpair__info_ab3aa7a54e6976f46e69c6ffcddd0e782}{ent}}\label{structpair__info_ab3aa7a54e6976f46e69c6ffcddd0e782}
  22
  23 \begin{DoxyCompactList}\small\item\em Pseudo entropy for $ p(i,j) = S_i + S_j - p_ij*ln(p_ij) $. \end{DoxyCompactList}\item
  24 \hypertarget{structpair__info_a23fc316453d179474bed7f6ed2489723}{short \hyperlink{structpair__info_a23fc316453d179474bed7f6ed2489723}{bp} \mbox{[}8\mbox{]}}\label{structpair__info_a23fc316453d179474bed7f6ed2489723}
  25
  26 \begin{DoxyCompactList}\small\item\em Frequencies of pair\-\_\-types. \end{DoxyCompactList}\item
  27 \hypertarget{structpair__info_a4da3d6c9042500c16c4b06e0bbc48190}{char \hyperlink{structpair__info_a4da3d6c9042500c16c4b06e0bbc48190}{comp}}\label{structpair__info_a4da3d6c9042500c16c4b06e0bbc48190}
  28
  29 \begin{DoxyCompactList}\small\item\em 1 iff pair is in mfe structure \end{DoxyCompactList}\end{DoxyCompactItemize}
  30
  31
  32 \subsection{Detailed Description}
  33 A base pair info structure.
  34
  35 For each base pair (i,j) with i,j in \mbox{[}0, n-\/1\mbox{]} the structure lists\-:
  36 \begin{DoxyItemize}
  37 \item its probability 'p'
  38 \item an entropy-\/like measure for its well-\/definedness 'ent'
  39 \item the frequency of each type of pair in 'bp\mbox{[}\mbox{]}'
  40 \begin{DoxyItemize}
  41 \item 'bp\mbox{[}0\mbox{]}' contains the number of non-\/compatible sequences
  42 \item 'bp\mbox{[}1\mbox{]}' the number of C\-G pairs, etc.
  43 \end{DoxyItemize}
  44 \end{DoxyItemize}
  45
  46 The documentation for this struct was generated from the following file\-:\begin{DoxyCompactItemize}
  47 \item
  48 /home/asherstnev/\-Projects/\-Java.\-projects/jabaws/secure-\/git/develop/binaries/src/\-Vienna\-R\-N\-A/\-H/\hyperlink{data__structures_8h}{data\-\_\-structures.\-h}\end{DoxyCompactItemize}