% Biohaskell-KB.tex
\begin{hcarentry}{Biohaskell}
\label{bioinformatics}
\report{Ketil Malde}%11/14
\participants{Christian H\"oner zu Siederdissen, Michal J.\ Gajda, Nick
Ignolia, Felipe Almeida Lessa, Dan Fornika, Maik Riechert, Ashish Agarwal,
Grant Rotskoff, Florian Eggenhofer, Sarah Berkemer, Niklas Hamb\"uchen}
\makeheader

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\begin{center}
\includegraphics[width=0.235\textwidth]{html/biohaskell.pdf}
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Bioinformatics in Haskell is a steadily growing field, and the
\href{http://hackage.haskell.org/packages/archive/pkg-list.html#cat:bioinformatics}{\emph{Bio}
  section} on Hackage now contains 69 libraries and applications. The
\href{http://biohaskell.org}{biohaskell web site} coordinates this
effort, and provides documentation and related information.
Anybody interested in the combination of Haskell and bioinformatics is encouraged
to sign up to the mailing list (currently by emailing
\email{ketil@@malde.org}{Ketil}), and to register and document their contributions on the
\href{http://biohaskell.org}{http://biohaskell.org} wiki.

In the summer of 2014, Sarah Berkemer was financed by Google's
\href{https://www.google-melange.com/gsoc/homepage/google/gsoc2014}{Summer of
Code} program to work on optimizing
\href{http://blog.malde.org/posts/transitive-alignments.html}{transalign}.
After a summer's work, Sarah was able to improve both
\href{http://biohaskell.org/GSoC\_blog}{space and time usage}.  Other new
additions are parsers by Floran Eggenhofer for the NCBI
\href{https://hackage.haskell.org/package/Genbank}{Genbank} format and for
\href{https://hackage.haskell.org/package/ClustalParser}{Clustal} mulitiple
sequence alignments.  There is also a new
\href{https://hackage.haskell.org/package/hemokit}{library for working with
EEG} devices, written by Niklas Hamb\"uchen and Patrick Chilton.

\FurtherReading
\begin{compactitem}
\item \url{http://biohaskell.org}
\item \url{http://blog.malde.org}
\item \url{http://www.bioinf.uni-leipzig.de/~choener/haskell/}
\item \url{https://bioinf.eva.mpg.de/biohazard/}
\end{compactitem}
\end{hcarentry}
