GitToDo Install Guide #1: the command line utilities

Some years ago I was in need of a todo list tool. Of course, the requirements were simple: distributed, version controlled, command line support (I must be able to access it with minimal requirements). I also hooked it up with the Freemind mindmapping tool. I am in the process of installing it on my new laptop, so thought a walk-through might be useful.

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Is Nature really clueless about Blogs, Twitter, etc? WTF ?!

My apologies for this rant in the early morning, but WTF?? (what the fuzz??) I just got pointed to this Peer review: Trial by Twitter (doi:10.1038/469286a) by Mandavilli. Cool title, but before I even finished seventeen words of the intro… WTF?? Here it is:

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Re: How can cancer research be open-sourced?

Mark asked on Quora on how can cancer research be open-sourced. So, far I found Quora to be rather noisy, even after signing up only to science related groups, themes, whatever it is called. However, every now and then there is an interesting question like this one.

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The 9th International Conference on Chemical Structures (ICCS)

 

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#pmrhack and #pmrsymp (or: what to do the next days?)

The next few days there will be a disturbance of the force: #pmrhack and #pmrsymp. Because I have an important meeting early next week in my new position, I am unable to attend these events. The first is a symposium organize in honor of Peter Murray-Rust, called Visions of a Semantic Molecular Future Symposium, which attracts over 100 people! Maybe Open Source cheminformatics has taken off ;) (Or, maybe it’s just people who love to see how it has not.)

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Karolinska Institutet

Hi all, and a happy 2011! After a turbulent December (finishing up in the Oscar project), holidays, etc, I am starting to get some sense of organization in my new position at the Institutet för miljömedicin at the Karolinska Institutet in Stockholm. I will be using cheminformatics and chemometrics methods in toxicology studies, and work in the groups of Prof. Roland Grafström and Prof. Bengt Fadeel.

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The 100th Blue Obelisk 2006 paper citation

Two and a half months after the CDK milestone, the Blue Obelisk paper also reached 100 citations. Here the lucky paper is Design, Synthesis, and Preclinical Evaluation of New 5,6- (or 6,7-) Disubstituted-2-(fluorophenyl)quinolin-4-one Derivatives as Potent Antitumor Agents by Chou et al (doi:10.1021/jm100780c). The Blue Obelisk paper (doi:10.1021/ci050400b) is cited because the authors used OpenBabel. About half of the 100 citations is because OpenBabel was used, whereas OpenBabel is only mentioned as one of the Blue Obelisk-associated unprojects in the Blue Obelisk paper.

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