That time of year again...
I did a quick writeup, basically keeping the intro section from before,
and adding some notes about Sarah's GSoC work, and Florian's two new
libraries. Anything else that needs to go in? (I don't want to go into
too much detail, just a brief overview showing there's some activity
going on. So brief notes/links please.)
% Biohaskell-KB.tex
\begin{hcarentry}[updated]{Biohaskell}
\label{bioinformatics}
\report{Ketil Malde}%11/13
\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}
\makeheader
%**<img width=200 src="./biohaskell.svg">
%*ignore
\begin{center}
\includegraphics[width=0.235\textwidth]{html/biohaskell.pdf}
\end{center}
%*endignore
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{space and time
usage}{http://biohaskell.org/GSoC_blog}.
Other new additions are parsers by Floran Eggenhofer for the NCBI
\href{Genbank}{https://hackage.haskell.org/package/Genbank} format and for
\href{Clustal}{https://hackage.haskell.org/package/ClustalParser}
mulitiple sequence alignments.
\FurtherReading
\begin{compactitem}
\item \url{http://biohaskell.org}
\item \url{http://blog.malde.org}
\item \url{http://www.tbi.univie.ac.at/~choener/haskell/}
\item \url{http://adp-multi.ruhoh.com}
\item \url{https://bioinf.eva.mpg.de/biohazard/}
\end{compactitem}
\end{hcarentry}
-k
--
If I haven't seen further, it is by standing in the footprints of giants
