We published a new article in Nature Scientific Reports: Kälsch J, Bechmann LP, Heider D, Best J, Manka P, Kälsch H, Sowa JP, Moebus S, Slomiany U, Jöckel KH, Erbel R, Gerken G, Canbay A. Normal liver enzymes are correlated with severity of metabolic syndrome in a large population based cohort. Nature Scientific Reports 2015,…
Two poster abstracts of the Bioinformatics group have been accepted at the GCB 2015: Riemenschneider et al.: SHIVA – A web application for drug resistance testing. Neumann et al.: Comparison of variable importance measures from random forest algorithms on strongly unbalanced data. Looking forward to Dortmund!
Meeting in Melbourne
Our group recently started a research collaboration with the Burnet Institute in Melbourne, Australia. This collaboration is supported by the Bavarian Research Alliance (BayIntAn_HSWT_2015_87). Please find some impressions from our stay in Melbourne.
ISMB / ECCB 2015
Some impressions from the ISMB / ECCB 2015 in Dublin
BIT & BNR BBQ
Some impressions from our BIT and BNR BBQ!
Heart Guard DX
We launched our crowdfunding project Heart Guard DX! Please support our project (financially, and by broadcasting the url via facebook, twitter, etc.)
Software UI mockup
Few days ago I’ve started developing a web application for analyses of metatranscriptome data. One really fantastic thing that helped me to quickly get a general idea of the user interface layout and design was the online tool moqups. It’s ideal to create GUI drafts especially for web based apps and it’s definitely better than…
After work outdoor workout
I’m looking forward doing some sports outside with my colleagues enjoying the sun 🙂 Every Tuesday colleagues and students from WZ Straubing meet to have a gorgeous and effective workout session with our own fitness instructor Dima. We meet at 5.45pm at Turmair sports area going for a warm-up jogging round alongside the Danube river…
SSPACE – Can’t locate getopts.pl
Today I tried to run the SSPACE Standard perl script for doing scaffolding of pre-assembled contigs, but I got this error message: Can’t locate getopts.pl in @INC (@INC contains: /Tools/SSPACE-STANDARD-3.0_linux-x86_64/dotlib/ /etc/perl /usr/local/lib/perl/5.18.2 /usr/local/share/perl/5.18.2 /usr/lib/perl5 /usr/share/perl5 /usr/lib/perl/5.18 /usr/share/perl/5.18 /usr/local/lib/site_perl .) at SSPACE_Standard_v3.0.pl line 124. getopts.pl is a Perl 4 core library but no longer included in…
How to run velvet with OPENMP
Just few steps to make velvet working for de novo genome assembly using multiple CPU cores: 1) Download the latest version of velvet from http://www.ebi.ac.uk/~zerbino/velvet/ 2) $ tar -xzvf velvet_1.2.10.tgz 3) $ cd velvet_1.2.10 4) Edit the Makefile to compile with a higher Kmer length and enable longsequences for contigs longer than 32kb: $ vim…