\section{seqhit}
\label{module_seqhit}
This module contains the following objects

\begin{itemize}
\item \ref{object_DnaSequenceHitList} DnaSequenceHitList

\item \ref{object_SegmentHitList} SegmentHitList

\item \ref{object_SegmentHit} SegmentHit

\end{itemize}
\subsection{Object DnaSequenceHitList}

\label{object_DnaSequenceHitList}

The DnaSequenceHitList object has the following fields. To see how to access them refer to \ref{accessing_fields}
\begin{description}
\item{forward} Type [SegmentHitList * : Scalar] No documentation

\item{backward} Type [SegmentHitList * : Scalar] No documentation

\end{description}
No documentation for DnaSequenceHitList

Member functions of DnaSequenceHitList

\subsubsection{show_DnaSequenceHitList}

\begin{description}
\item[External C] {\tt Wise2_show_DnaSequenceHitList (dsl,ofp)}
\item[Perl] {\tt &Wise2::DnaSequenceHitList::show_DnaSequenceHitList (dsl,ofp)}

\item[Perl-OOP call] {\tt $obj->show_DnaSequenceHitList(ofp)}

\end{description}
Arguments
\begin{description}
\item[dsl] [UNKN ] Undocumented argument [DnaSequenceHitList *]
\item[ofp] [UNKN ] Undocumented argument [FILE *]
\item[returns] Nothing - no return value
\end{description}
shows a DnaSequenceHitsList -


only really useful for debugging


\subsubsection{read_MSPcrunch_DnaSequenceHitList}

\begin{description}
\item[External C] {\tt Wise2_read_MSPcrunch_DnaSequenceHitList (ifp)}
\item[Perl] {\tt &Wise2::DnaSequenceHitList::read_MSPcrunch_DnaSequenceHitList (ifp)}

\item[Perl-OOP call] {\tt $obj->read_MSPcrunch_DnaSequenceHitList()}

\end{description}
Arguments
\begin{description}
\item[ifp] [UNKN ] input file to read [FILE *]
\item[returns] [UNKN ] newly allocated structure [DnaSequenceHitList *]
\end{description}
Reads a MSPcrunch -x output file 


\subsection{Object SegmentHitList}

\label{object_SegmentHitList}

The SegmentHitList object has the following fields. To see how to access them refer to \ref{accessing_fields}
\begin{description}
\item{seghit} Type [SegmentHit ** : List] No documentation

\end{description}
No documentation for SegmentHitList

Member functions of SegmentHitList

\subsection{Object SegmentHit}

\label{object_SegmentHit}

The SegmentHit object has the following fields. To see how to access them refer to \ref{accessing_fields}
\begin{description}
\item{name} Type [char * : Scalar] No documentation

\item{qstart} Type [int : Scalar] No documentation

\item{qend} Type [int : Scalar] No documentation

\item{tstart} Type [int : Scalar] No documentation

\item{tend} Type [int : Scalar] No documentation

\item{score} Type [double : Scalar] No documentation

\item{next_hit} Type [SegmentHit * : Scalar]  for collecting hits together ;)

\end{description}
No documentation for SegmentHit

Member functions of SegmentHit

