Monthly Archives: July 2013


SciLifeLab Stockholm & Stockholm University, Sweden, jointly seeks to recruit an outstanding young group leader in Ecological Genomics. Last day of application is September 10, 2013. The formal announcement can be found here:

Some important facts:
– This is a tenure-track position as Assistant Professor, with good opportunities for promotion to (tenured) Associate Professor and later to full Professor at Stockholm University.

– SciLifeLab is the Swedish national centre for large-scale biosciences, with state-of-the-art equipment and know-how, whereas Stockholm University is one of the world’s top 100 institutes of higher education. The beautiful city of Stockholm is routinely ranked as one of the very best cities in the world to live and work in.
– The position comes with considerable start-up funding, and strong applicants can negotiate for further support from Stockholm University. The Assistant Professorship can be placed either at the Department of Zoology or at the Department of Ecology, Environment and Plant Sciences, depending on research focus.
– Informal information: Department of Zoology, Soren Nylin (; Department of Ecology, Environment and Plant Sciences, Peter Hamback ( For information about SciLifeLab conditions, candidates can refer to Gunnar von Heine (

Montagu’s Harrier live webcam

Nesting Montagu’s Harrier in east Groningen, NL:

‘Molecol’ ready for use

The new computing server ‘molecol’ is ready for use. It has 64 AMD cores with a total of 512 GB RAM. molecol is hosted by CICS and integrated into Iceberg.

You can use molecol for all jobs that cannot be efficiently done on Iceberg. Particularly long jobs or those that require a lot of RAM. Saying this you should run your jobs on Iceberg if you can run them there without a long waiting time because molecol is tiny in comparison with the 2000+ cores available on Iceberg. I also recommend everybody who plans to run analyses on molecol to first familiarise him/herself with the Iceberg environment.

In addition, we have now a dedicated long term storage available for precious raw data and final polished data sets. For intermediate data sets keep using /fastdata and /local, the access to these is much faster. Our long term storage is initially 5 TB (but will increase to 50 TB over five years) and it is regularly backed up by CICS.

If you want access to molecol or the long term data storage drop me (c.kuepper) a line. I’ll email weekly a list of new users to the Iceberg administrators.


Paired end read alignment

Hi all,

I have recently got data back from an Illumina MiSeq 250bp paired end run. I have managed to clean it and am now at the stage were I want to align the paired end reads. Does anyone have any experience in paired end read alignment and which tools are the best for doing so?



reminder: Mol Ecol lab meeting, TOMORROW Tuesday 2nd July, 10-11am in B52 – Clemens and Liam

Hi all!

There has been a bit of rescheduling of the lab talks so that we stick to our usual one hour slot. Liam and Clemens are now speaking tomorrow with Ludovic speaking in September instead.

Clemens Kuepper: Genetics of shorebird breeding systems

Liam Rasch: The gene network regulating shark tooth development

See you there for a prompt 10am start!

Anna 🙂