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…
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…
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…
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…
