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syncopation & accordionCafe de Flore (Doctor Rockit)like France, but no dog poopmore quotes

pi: exciting


In Silico Flurries: Computing a world of snow. Scientific American. 23 December 2017


visualization + design

Martin Krzywinski @MKrzywinski mkweb.bcgsc.ca
The 2018 Pi Day art celebrates the 30th anniversary of `\pi` day and connects friends stitching road maps from around the world. Pack a sandwich and let's go!

The art of Pi (`\pi`), Phi (`\phi`) and `e`


Pi Art Posters
 / Martin Krzywinski @MKrzywinski mkweb.bcgsc.ca
2018 `\pi` day shrinks the world and celebrates road trips by stitching streets from around the world together. In this version, we look at the boonies, burbs and boutique of `\pi` by drawing progressively denser patches of streets. Let's go places.

Pi Art Posters
 / Martin Krzywinski @MKrzywinski mkweb.bcgsc.ca
2017 `\pi` day

Pi Art Posters
 / Martin Krzywinski @MKrzywinski mkweb.bcgsc.ca
2016 `\pi` approximation day

Pi Art Posters
 / Martin Krzywinski @MKrzywinski mkweb.bcgsc.ca
2016 `\pi` day

Pi Art Posters
 / Martin Krzywinski @MKrzywinski mkweb.bcgsc.ca
2015 `\pi` day

Pi Art Posters
 / Martin Krzywinski @MKrzywinski mkweb.bcgsc.ca
2014 `\pi` approx day

Pi Art Posters
 / Martin Krzywinski @MKrzywinski mkweb.bcgsc.ca
2014 `\pi` day

Pi Art Posters
 / Martin Krzywinski @MKrzywinski mkweb.bcgsc.ca
2013 `\pi` day

Pi Art Posters
 / Martin Krzywinski @MKrzywinski mkweb.bcgsc.ca
Circular `\pi` art

Like music with numbers? Here's a short list of some of my favourite songs that have numbers in their lyrics. Absolutely none of them is about bottles of beer.

music with numbers

1 — One Hundred Billion Sparks, Max Cooper | Imagine a neuron firing. Now imagine 100,000,000,000 neurons firing. This is the music for it.

2 — Numbers, Smoke City | This song is entirely composed of references to different numbers. The bonus? It's both in English and Portuguese. I love the way it ends—"Isn't it beautiful out here?".

Un
Un
Four
Five

Fifteen
Quinze
Seventeen
Seven

...

Tres
forty nine

Isn't it beautiful out here?
Isn't it beautiful out here?
Isn't it beautiful out here?

3 — 99 luftbaloons, Nena | The numerical classic.

Hast du etwas Zeit für mich
Dann singe ich ein Lied für dich
Von 99 Luftballons

4 — One, Aimee Mann | Beautiful mathematics of relationships using small numbers.

One is the lonliest number that you'll ever do. Two can be as bad as one, it's the lonliest number since the number one.

5 — Angels at My Door, Una | Long sequences of numbers.

58, 56, 54 angels at my door.
63, 62, 61, 60, 59, 58 angels at my gate.

6 — Tricky, Tricky, Royksopp | Number words about the fearful six from Norway.

Six afraid of seven 'cause seven, eight, nine
I'm about to lose it the second time

7 — Pt vs Ys, Yoshinori Sunahara | The first four numbers, in German, are this song's lyrics.

Eins, zwei, drei, vier.

8 — Der Kommissar, Falco | Unlike the previous song, this one starts with a German count (doesn't get to vier, though) and just gets better from there.

Two, three, four
Eins, zwei, drei
Na, es is nix dabei
Na, wenn ich euch erzähl' die G'schicht'

9 — 2wicky, Hooverphonic | The numbers likely reference the Prophet-600 and SH-101 synthesizers.

Prophet 60091.
Before we start you should know that you're not the only one who can hurt me.
SH10151.
This is the serial number of our orbital gun.
SH10151.
You better be sure before you leave me for another one.

10 — Straight to Number One, Touch and Go | Something to listen to after midnight.

Fingers, four, play, three, to number one.

11 — The Beat Experience, Pepe Deluxe | I am reminded of this song at too many academic seminars.

Here we are now, at the middle, of the fourth large part of this talk.
More and more I have the feeling that we are getting nowhere.
Slowly, as the talk goes on, we are getting nowhere.
And that is a pleasure.

It is not irritating where one is.
It is only irritating to think one would like to be somewhere else.
Here we are now, a little bit after the middle, of the fourth large part of this talk.

12 — Thousand Kisses Deep, Leonard Cohen | A list of songs that doesn't include one by Cohen is not worth reading. The sentiment of a thousand kisses is as old as lips existed. Catullus wrote to Lesbia "da mi basia mille, deinde centum, dein mille altera, dein secunda centum, deinde usque altera mille, deinde centum" [Give me a thousand kisses, then a hundred, then another thousand, then a second hundred, then yet another thousand, then a hundred.] Well, you get the idea.

And sometimes when the night is slow,
The wretched and the meek,
We gather up our hearts and go,
A Thousand Kisses Deep.

13 — Six Seven Times, Flunk | Curiously the product here is 42. This song is the answer to life.

You've got it all
Six seven times
You've got it all
Makes me feel so fine
And it's all there is

14 — 7 seconds, Youssou N'Dour | Dreamy references to a short period of time.

7 seconds away. Just as long as I stay. I'll be waiting.

15 — 100 Billion Stars, Lux | Something to relax to while you ponder insignificance.

16 — First Picture, Nikolaj Grandjean | First is the most memorable number.

I remember
The first picture
One million different shadows
Where we've been around the willows

17 — Millions of Millions, Music for a French Elevator | Very desirable. And I can't believe I transcribed the whole thing.

5.50 million dollars, 2.6775 and very desirable 8 million dollars 5.6 million and 2.4 million 3.4 million and 2.9 million 1.2 would've amounted to 4 million 1.2 million 19.4 million 6.6 million 5.275 million 1.2 million 3-and-a-half million dollars 6.453 million 8 million 5.050 million 1.4 million close to a million dollars 933.5 million 3.8 million 5 million dollars 2-and-a-half million 600 million dollars can you shut the door? 3-and-a-half million dollars 2.5 million .050 million 572,750 thousand 5.050 million 3.8 million 3 million 150 thousand 8 million 419.5 million

18 — Love Potion #9, The Searchers | I started kissing everythying in sight.

It smelled like turpentine, it looked like Indian ink
I held my nose, I closed my eyes, I took a drink.

19 — 93 Million Miles, Luan Santana feat. John Kip | A little sticky, a little sweet but it makes up for the fact that much of it is in Portuguese.

But the absence of the light is a necessary part.

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news + thoughts

Find and snap to colors in an image

Sat 29-12-2018

One of my color tools, the colorsnap application snaps colors in an image to a set of reference colors and reports their proportion.

Below is Times Square rendered using the colors of the MTA subway lines.


Colors used by the New York MTA subway lines.

Martin Krzywinski @MKrzywinski mkweb.bcgsc.ca
Times Square in New York City.
Martin Krzywinski @MKrzywinski mkweb.bcgsc.ca
Times Square in New York City rendered using colors of the MTA subway lines.
Martin Krzywinski @MKrzywinski mkweb.bcgsc.ca
Granger rainbow snapped to subway lines colors from four cities. (zoom)

Take your medicine ... now

Wed 19-12-2018

Drugs could be more effective if taken when the genetic proteins they target are most active.

Design tip: rediscover CMYK primaries.

More of my American Scientific Graphic Science designs

Ruben et al. A database of tissue-specific rhythmically expressed human genes has potential applications in circadian medicine Science Translational Medicine 10 Issue 458, eaat8806.

Predicting with confidence and tolerance

Wed 07-11-2018
I abhor averages. I like the individual case. —J.D. Brandeis.

We focus on the important distinction between confidence intervals, typically used to express uncertainty of a sampling statistic such as the mean and, prediction and tolerance intervals, used to make statements about the next value to be drawn from the population.

Confidence intervals provide coverage of a single point—the population mean—with the assurance that the probability of non-coverage is some acceptable value (e.g. 0.05). On the other hand, prediction and tolerance intervals both give information about typical values from the population and the percentage of the population expected to be in the interval. For example, a tolerance interval can be configured to tell us what fraction of sampled values (e.g. 95%) will fall into an interval some fraction of the time (e.g. 95%).

Martin Krzywinski @MKrzywinski mkweb.bcgsc.ca
Nature Methods Points of Significance column: Predicting with confidence and tolerance. (read)

Altman, N. & Krzywinski, M. (2018) Points of significance: Predicting with confidence and tolerance Nature Methods 15:843–844.

Background reading

Krzywinski, M. & Altman, N. (2013) Points of significance: Importance of being uncertain. Nature Methods 10:809–810.

4-day Circos course

Wed 31-10-2018

A 4-day introductory course on genome data parsing and visualization using Circos. Prepared for the Bioinformatics and Genome Analysis course in Institut Pasteur Tunis, Tunis, Tunisia.

Martin Krzywinski @MKrzywinski mkweb.bcgsc.ca
Composite of the kinds of images you will learn to make in this course.

Oryza longistaminata genome cake

Mon 24-09-2018

Data visualization should be informative and, where possible, tasty.

Stefan Reuscher from Bioscience and Biotechnology Center at Nagoya University celebrates a publication with a Circos cake.

The cake shows an overview of a de-novo assembled genome of a wild rice species Oryza longistaminata.

Martin Krzywinski @MKrzywinski mkweb.bcgsc.ca
Circos cake celebrating Reuscher et al. 2018 publication of the Oryza longistaminata genome.

Optimal experimental design

Tue 31-07-2018
Customize the experiment for the setting instead of adjusting the setting to fit a classical design.

The presence of constraints in experiments, such as sample size restrictions, awkward blocking or disallowed treatment combinations may make using classical designs very difficult or impossible.

Optimal design is a powerful, general purpose alternative for high quality, statistically grounded designs under nonstandard conditions.

Martin Krzywinski @MKrzywinski mkweb.bcgsc.ca
Nature Methods Points of Significance column: Optimal experimental design. (read)

We discuss two types of optimal designs (D-optimal and I-optimal) and show how it can be applied to a scenario with sample size and blocking constraints.

Smucker, B., Krzywinski, M. & Altman, N. (2018) Points of significance: Optimal experimental design Nature Methods 15:599–600.

Background reading

Krzywinski, M., Altman, N. (2014) Points of significance: Two factor designs. Nature Methods 11:1187–1188.

Krzywinski, M. & Altman, N. (2014) Points of significance: Analysis of variance (ANOVA) and blocking. Nature Methods 11:699–700.

Krzywinski, M. & Altman, N. (2014) Points of significance: Designing comparative experiments. Nature Methods 11:597–598.