Category Archives: science

You have beautiful ize. [Weekly Head Voices #62]

I completely lack the genes that usually cause human males to have a thing for cars, but I do love Top Gear. This trailer for a fictional 60s detective show, made by Jeremy Clarkson, James May and Richard Hammond, encapsulates many of the reasons why:

Moustaches, guns, girls, cars and Hammond karate-chopping the porter at Playboy Club London for absolutely no reason whatsoever at 41 seconds can be nothing but 100% pure AWESOME.

It’s crazily busy at the moment, for a large part due to the extra load of having to teach and revamp, AT THE SAME TIME, the TU Delft’s postgraduate Data Visualization course. I’ve chucked out the written exam and the structured lab work, and exchanged it for paper reading, class discussion and four independent projects, inspired by positive experience with my Medical Visualization Ninja Training Course (third year in the running, Ninjas all over the place!), the postgraduate InfoVis course I gave at Stellenbosch and of course the teaching materials of esteemed colleagues at UBC, Harvard, Berkeley and Stanford. With a bit of luck, we will soon deliver a whole class of new-style DataVis Ninjas.

At a recent conference, I ran into an erudite half-British colleague from the far North, who in a few minutes almost managed to turn my world into rubble. You see, I’ve always proudly promoted the use of the -ise forms of certain words, such as visualise, realise, colonise and so forth, these being examples of British English. (Obviously, I adapt when American English is required.)

It turns out that, as is the case with life in general, it’s unfortunately not as simple as that.

It turns out that many of the -ise words are originally from the Greek or the Latin with “-ize” endings, and therefore the Oxford spelling prefers their use, although it accepts the “-ise” forms as well. On the other hand, the Cambridge University Press, as well as the mainstream media and most of the public in Britain and the former colonies, has a strong preference for the “-ise” forms. Certain other words like for example advertise, advise and surprise always take the “-ise” form in British English.

So now I’m faced with this conundrum. It would otherwise not have been such an issue, but the words “visualise” and “visualisation” come up quite often during my work day. Sticking to “-ise” is easier and still correct when in British English mode, but “-ize” for those few words of Greek  and Latin origin could perhaps be considered more correct, and has the great advantage of allowing me to standardise on “visualize” as the canonical form of that important term. However, then I would run the risk of confusing the “-ize” and the true “-ise” words in Oxford English, potentially leading to painful embarrassment at the many cocktail parties that I frequent.

So you see, the Universe is just full of mysteries. Another mystery that has plagued humankind for decades, is what would happen if Stephen Hawking and Albert Einstein got involved in a rap battle. Well humankind, wonder no more:

Ok kids, thank you for tuning in again. Have a great week, I hope to see you again soon!

EuroVis 2011

I’ve written before about EuroVis, the most important European scientific conference on visualisation. In 2009, it took place in Berlin, in 2010 it was in Bordeaux, and, an a surprise non-twist of alliteration, the 2011 edition was held in Bergen, Norway. With 216 attendees and a practically perfect organization, this year’s edition has been described as the biggest and the best EuroVis ever. In a bid to save some time (I still owe you a mega-edition of the Weekly (actually Monthly) Head Voices), I’m going to give my biased account in bullet-list form:

  • On Tuesday evening, we were welcomed by the very charismatic vice mayor of Bergen in the Tårnsalen of the Lysverket building of the Bergen Art Museum. It seems the photo I took of the inside of the art deco tower, built in 1938, is quite a popular shot. The food was divine, thank you very much.

Art Deco tower from the inside in the Tårnsalen, Lysverket.

  • The next morning, during the conference opening, the following Bergen (rainiest city in Europe) joke was told: A visitor asks a local boy in exasperation “Does it rain like this all the time?” and the little boy answers “I don’t know, I’m only 12 years old!”.
  • The conference keynote was given by Scott McCloud, American cartoonist and comic theorist, on aspects of visual communication. This was most probably the best presentation I’ve ever had the privilege of experiencing. Besides brilliant oratorship, his slides are somehow more a visual stream of consciousness affair than discrete quanta of information. When I grow up, I’m going to present like that.

As per usual, I get to award the Weekly Head Voices Best Paper awards, and they go to the following papers:

  • A Shader Framework for Rapid Prototyping of GPU-Based Volume Rendering by Christian Rieder, Stephan Palmer, Florian Link and Horst K. Hahn. Rieder and his colleagues have constructed a full GPU-based volume rendering pipeline in MeVisLab of which the various shader based components are modifiable at runtime. This means that you can prototype your GPU-based volume rendering ideas in no time flat!
  • Curve Density Estimates by Ove Daae Lampe and Helwig Hauser. Back to basics and really important work on the effective visualisation of complex curves at any resolution, with smooth scaling between levels.
  • A Gradient-Based Comparison Measure for Visual Analysis of Multifield Data by Suthambhara Nagaraj, Vijay Natarajan and Ravi S. Nanjundiah. Another back-to-basics paper in which the authors show how to find the agreement between hundreds of scalar fields and visualise this agreement, thus enabling comparison.

The slightly less prestigious EuroVis 2011 Best Paper awards went to:

  1. Uncertainty-Aware Exploration of Continuous Parameter Spaces Using Multivariate Prediction  by Wolfgang Berger, Harald Piringer, Peter Filzmoser, Eduard Gröller. I was unfortunately in the other session, but was told by numerous colleagues that this was indeed an award-winning presentation as well.
  2. A User Study of Visualization Effectiveness Using EEG and Cognitive Load by Erik Anderson, Kristin Potter, Laura Matzen, Jason Shepherd, Gilbert Preston, Claudio Silva. This was presented in the Evaluation session which I had the privilege of chairing. It is indeed a very compelling idea to measure the effectiveness of a visualisation through cognitive load and this paper documents the first very important steps in this direction.
  3. A Gradient-Based Comparison Measure for Visual Analysis of Multifield Data by Suthambhara Nagaraj, Vijay Natarajan and Ravi S. Nanjundiah. This was also amongst the more prestigious WHV best paper award winners, see above!

The rest of the conference featured the following bullets:

  • During the social event on Thursday evening, Frits Post (my boss), was elevated to the rank of Eurographics Honorary Fellow, recognizing his service to and standing in the visualisation community. Including this newest addition, there are only five (5!) EG Honorary Fellows in the world today. I am very proud!
  • During the first session of the morning after the social event, I had the exquisite privilege of presenting the work of my Brazilian colleagues: Piecewise Laplacian-based Projection for Interactive Data Exploration and Organization by Fernando V. Paulovich, Danilo M. Eler, Jorge Poco, Charl P. Botha, Rosane Minghim, Luis G. Nonato. I really do like presenting at events like these, and it’s been a while. Do read and cite the paper, it documents a practical way of reducing any set of high-dimensional data points to the visual space, and enabling interaction with those points on the visual space!
  • The capstone of the conference was presented by the legendary Prof. E. Gröller, also known by the whole community as Meister. In typical style, the title of his talk was only announced during the talk itself. The title was The Haunted Swamps of Heuristics. In this philosophical and visionary contribution, it was argued that algorithms and parameters are too deeply intertwined to focus only on the former, but that it was more important to study, in detail, the exact behaviour of the latter. More broadly speaking, we need to accept the fact that there is a great deal of uncertainty also in the parameter spaces of our algorithms, but that this uncertainty can and should be dealt with correctly.

That thought-provoking capstone and this blog post will share the same concluding quote:

Doubt is not a pleasant condition, but certainty is absurd. — Voltaire / Gröller

I hope to see you in the comments below! You could also opt to click on my shiny new +1 button, or my slightly older but no less shiny retweet or facebook share buttons.

Schloss Dagstuhl: Computer Scientist Heaven

Somewhere in a remote but picturesque location in southern Germany, there’s a special castle called Schloss Dagstuhl. Every week, the castle fills up with a smallish group of Exceptionally Privileged Computer Scientists, who can only go there Because They Have Been Invited. Every week hosts a different field; In my case this was the Scientific Visualization seminar, one of the oldest participating groups. Everything has been setup just so to guarantee a perfect computer sciencey week for all guests. Because I’ve already been boring too many people with this story in person, I thought it prudent to write it up. Let’s hope it’s not a first (and second!) rule of Fight Club situation, in which case posting frequency over here might drop quite drastically.

Schloss Dagstuhl, picture courtesy of Wikipedia.

To begin with, the meals are exquisite, three times a day, every day. As we all know, the path to a computer scientist’s heart is through buying them new gadgets, but feeding them well is a great backup plan. Another very nice touch is the fact that seating is deliberately randomised, meaning that your introvert self is forced to sit at the table with a different group of guests during each lunch and dinner, in turn meaning that even if you try otherwise, you will probably get to have a good conversation with every one of the fifty attendees.

In the case of our seminar, the working day consists of presentations in blocks of three or four, followed by a longer block of discussion on all the preceding presentations, panel style. Attendees were all asked not just to give a standard scientific presentation, but to discuss open problems and future challenges in their respective sub-fields. I (and many others, judging by the aggregated post-meeting feedback) really enjoyed this format. The presentations made one think, and the discussion blocks were long enough to really get into the details. You can check out abstracts and slides on the seminar website.

After a full day of quite intensive discussion, there were breakout sessions during which four subgroups started working on the various chapters of a new Springer book that should appear sometime early in next year. The book will deal with multi-field, uncertainty, biomedical and scalable visualization, and it has the makings of being a keeper.

The other extremely important magic bit about this castle is the abundance of real coffee machines (ones that grind coffee beans for every cup), snack corners and, uhm, beer fridges. You can’t really go anywhere, as you’re in the middle of nowhere, so after dinner the conversations tend to continue till late in the night, conversant stamina enhanced by said coffee and beer facilities. Evil science plans were made, good old-fashioned deep conversations were had and the early next morning consequences were flatly ignored. I haven’t laughed quite so much in a long time, but that part of the programme prefers, and has the right, to remain completely silent.

If you ever get the invitation, don’t hesitate for a second to accept: You shall return an exhausted but terribly happy computer nerd.

On the importance of taking notes. [Weekly Head Voices #38]

Post summary: Part one is about friends graduating from Evil School, part two is rather short mentioning vague bits of good news and part three is 100% time management and productivity boosting goodness! Feel free to skip, skim or reorder!

One

On Thursday, February 10, 2011, my dear friend Mister Krekel graduated from Evil School after years of hard work and evil-doing, and will henceforth go through life as the formidable Doctor Krekel. Please do watch out.

Evil School. (Photo by the talented fpixel.wordpress.com.)

The joyous transition took place in the Evil School’s Academiegebouw in Leiden, and this time yours truly (I’m referring to me in a round-about fashion) even had the great honour of playing a part in the formal proceedings. If you’re curious as to what exactly this ritual constitutes, see this previous edition of the WHV on the graduation of another terribly evil colleague. I believe that the bunch of us now constitute a bona fide Axis of Evil. No, the evil jokes can unfortunately not stop yet.

The Party was held in a secret cafe nearby. You will notice that I’ve capitalised Party, as it was not your average run of the mill Evil School graduation affair, but a social event of note. Here in Holland, the PhD defence and graduation are a combined affair, and so the whole day is dedicated to just one person. It is actually very special: People take time off from work, sometimes even temporarily put aside their differences, and travel from all over to attend the festivities. It’s like a wedding, except that there’s only one of you. I can only recommend it very highly. At the Party, everyone had clearly read the memo, and they were there with that singular goal in mind: Celebrate the freshly minted Evil Doctor. Presents were given, speeches were held, photos were shown, beer was imbibed and, flying in the face of all advice concerning the mixing of alcohol, cameras and social networking, the best evil photographer in town, who’s coincidentally also in Evil School, took the most amazing photos that you should be able to see on Facebook if you’re one of the privileged few to belong to The Network, also known as The Friends of the Axis of Evil.

Two

On the good news front, you’ll see (or not) on the list of EuroVis 2011 conditional accepts, that a paper by cool colleagues from far away, to which I contributed a small part, has been conditionally accepted, and hence has a significant chance of being presented at said event in Bergen, Norway (May 31 to June 3). We also have plans to submit a poster (or two), so there’s an even more significant chance that I will make an appearance at this fantastic conference! We’re also cooking up various odds and ends that will hopefully crystallise sufficiently by the end of March to be submissible for VisWeek 2011. Cross yer fingers.

Three

Today’s backyard time management section is in fact more about planning than it is about notes. However, my Pro-Tips involve combining them in an easy to implement productivity booster. When people start out in research, one of the first bits of advice they get is keeping some kind of lab journal. I think this advice applies to more than just research: If you do any kind of independent or project work, jotting down your activities, thoughts and results during the day is useful in helping to structure your thought processes, and also very helpful when you have to backtrack a complex multi-day procedure. During my Ph.D., I filled a number of real cardboard-and-paper books with notes. More recently, I’ve started using Google Documents for the same purpose. Besides all the other advantages, having to document explicitly your work output keeps you productive and on your toes.

Pro Tip #1: Keep a lab journal, even if you don’t work in a lab.

I’ve mentioned before that my resolutions for 2011 included more concrete planning. This has manifested in a work-in-progress planning for the whole year, including milestones, awards won, and so forth, but much more practically, it has manifested in a little lab-journal-compatible trick. Every morning when I sit down to begin the day, I spend a few minutes thinking and then start the day’s journal entry by writing down, as concretely as possible, the tasks that I plan to complete by the end of the day. This also ensures that I spend effort on the important things, and not only on the urgent things. So, that brings us to:

Pro Tip #2: At the start of each day, write down in your lab journal exactly and concretely what you plan to accomplish by the end of that day.

These pro tips appear to be quite straight-forward, but together they help one to focus, and to keep tabs on one’s effective productivity. In other words, just being terribly busy the whole day gets you nothing; the trick is being terribly busy in all the right directions.

P.S.

Somebody is clearly pushing the boundaries of awesomeness… cowboys AND aliens!

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The Future is Sick [Weekly Head Voices #36]

Post summary: Conference, VXLabs, SIP, boots, backyard philosophy on you the consumer, dramatic reading. Read on for more!

Just before the weekend I spent two days at the Dutch Bio-Medical Engineering Conference in Egmond aan Zee, in a ginormous seaside hotel. Probably because I attempted to keep up with the young ones during their nightly escapades, I’m currently dealing quite badly with a serious cold, which is why this is the first sick blog post of 2011.  Besides all those germs, I also brought you this photo of said seaside right after sunset:

Sunset on the Egmond aan Zee beach. Gorgeous, innit? There's even a dude walking on the beach so that you can wax all pensive.

The conference was an energetic and motivating affair, at which yours truly even got to chair a session, during which I tried, in spite of not getting to bed all that early the night before, to Keep Things Extremely Punctual As Well As Mildly Entertaining. I succeeded in the former, you’ll have to ask the audience about the latter.

The absolute highlight, for me at least, was the capstone on Friday by Professor Richard Satava, a surgeon with an amazing vision of the future. Bordering on science fiction but for a large part backed by his own and other groups’ research, his superbly delivered presentation touched on surgical operating rooms completely staffed by robots (some elements remotely controlled by a surgeon), cell engineering, surgery robots that heal troops at the scene of the crime (hehe), genetic engineering, cloning and a healthy dash of trans-humanism. By the end the whole room was collectively straining at the leash to go and genetically upgrade anything and anyone they could find. With a room full of BME researchers, that’s more dangerous than it sounds. :)

Other note-worthy items of the past two weeks can be summarised in the following neat bullet list:

  • I’ve started a new blog, called VXLabs, for matters that are too nerdy even for this blog. If you’re interested, you can start by reading the HTC Desire Z (my lovely new smartphone) review I’ve recently gotten around to writing. If you’re nerdy enough, you might consider subscribing VXLabs as well!
  • There are far cheaper ways than Skype to call telephones around the world. With SIP software, such as SIPDroid on Android, you can use cheap SIP servers that even offer free calls to many destinations. See this page for a list of just the betamax (German VOIP company) providers and the free countries that they support.
  • I was approached by a company producing Ugg-like boots to review their boots, get a free pair in the process, and get a good deal for my readers. This is probably because I went on about those BEAUTIFUL Timberland boots in one of my previous posts. Although I was flattered that the gentleman in question thought my widely-read (haha) opinion would be good for his brand and he called this a fashion blog (!!), I declined, stating that my readership probably is more into Timberlands than Uggs. That’s true, readership? Right?!
  • Micro Backyard Philosophy: After one of those late nights refreshing my Twitter, Facebook, Google Reader and GMail for the Nth time, I got to thinking about how the internet sometimes turns us into 100% consumers, leaving no room for creativity. It’s insidious, because we believe that the internet will give us exactly what we crave if we just know how to search for it, and that it should do so with that next press on the refresh button, when in fact this is hardly ever the case, especially when that which you crave is in fact to create. Remember this the next time it’s getting late and you think Just One More Refresh. Don’t push that button. Sit back and think about what you really want to do.

That’s it boys and girls, thank you very much for reading this far! You go and have yourselves a fabulous and especially creative week. If you get lonely waiting for the next edition of the Weekly Head Voices, marvel at this dramatic reading of a bad user game review, creativity at its finest:

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