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visualization + math

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

2021 $\pi$ reminds us that good things grow for those who wait.' edition.
2019 $\pi$ has hundreds of digits, hundreds of languages and a special kids' edition.
2018 $\pi$ day stitches street maps into new destinations.
2017 $\pi$ day imagines the sky in a new way.

2016 $\pi$ approximation day wonders what would happen if about right was right.
2016 $\pi$ day sees digits really fall for each other.
2015 $\pi$ day maps transcendentally.
2014 $\pi$ approx day spirals into roughness.

2014 $\pi$ day hypnotizes you into looking.
2014 $\pi$ day
2013 $\pi$ day is where it started
Circular $\pi$ art and other distractions

Numbers are a lot of fun. They can start conversations—the interesting number paradox is a party favourite: every number must be interesting because the first number that wasn't would be very interesting! Of course, in the wrong company they can just as easily end conversations.

The art here is my attempt at transforming famous numbers in mathematics into pretty visual forms, start some of these conversations and awaken emotions for mathematics—other than dislike and confusion

Count along ·
Like music with numbers? Try Angels at My Door (Una), Pt vs Ys (Yoshinori Sunahara), 2wicky (Hooverphonic), One (Aimee Mann), Straight to Number One (Touch and Go), 99 luftbaloons (Nena), and Aquarius (Boards of Canada)

Numerology is bogus, but art based on numbers can be beautiful. Proclus got it right when he said (as quoted by M. Kline in Mathematical Thought from Ancient to Modern Times)

Wherever there is number, there is beauty.

2,258 digits of $\phi$, 3,855 digits of $e$ and 3,628 digits of $\pi$ in 6 level treemaps. Uniform line thickness. Bauhaus prime colors in Piet Mondrian style. (2015 $\pi$ day posters, BUY ARTWORK)
Together with Max Cooper, we try to answer the question "What does infinity sound like?"
Telling a story about infinity is tricky. Especially a short one. Watch the video and see how we did it.

## the numbers π, φ and e

The consequence of the interesting number paradox is that all numbers are interesting. But some are more interesting than others—how Orwellian!

All animals are equal, but some animals are more equal than others.
—George Orwell (Animal Farm)

Numbers such as $\pi$ (or $\tau$ if you're a revolutionary), $\phi$, $e$, $i = \sqrt{-1}$, and $0$ have captivated imagination. Chances are at least one of them appears in the next physics equation you come across.

$π φ e$
$= 3.14159 26535 89793 23846 26433 83279 50288 41971 69399 ... = 1.61803 39887 49894 84820 45868 34365 63811 77203 09179 ... = 2.71828 18284 59045 23536 02874 71352 66249 77572 47093 ...$

Of these three transcendental numbers, $\pi$ (3.14159265...) is the most well known. It is the ratio of a circle's circumference to its diameter ($d = \pi r$) and appears in the formula for the area of the circle ($a = \pi r^2$).

2,258 digits of $\phi$, 3,855 digits of $e$ and 3,628 digits of $\pi$ in 6 level treemaps. Uniform line thickness. Bauhaus prime colors in Piet Mondrian style. (2016 $\pi$ day posters, BUY ARTWORK)

The Golden Ratio ($\phi$, 1.61803398...) is the attractive proportion of values $a > b$ that satisfy ${a+b}/2 = a/b$, which solves to $a/b = {1 + \sqrt{5}}/2$.

The last of the three numbers, $e$ (2.71828182...) is Euler's number and also known as the base of the natural logarithm. It, too, can be defined geometrically—it is the unique real number, $e$, for which the function $f(x) = e^x$ has a tangent of slope 1 at $x=0$. Like $\pi$, $e$ appears throughout mathematics. For example, $e$ is central in the expression for the normal distribution as well as the definition of entropy. And if you've ever heard of someone talking about log plots ... well, there's $e$ again!

Two of these numbers can be seen together in mathematics' most beautiful equation, the Euler identity: $e^{i\pi} = -1$. The tau-oists would argue that this is even prettier: $e^{i\tau} = 1$.

## accidentally similar

Did you notice how the 13th digit of all three numbers is the same (9)? This accidental similarity generates its own number—the Accidental Similarity Number (ASN).

news + thoughts

# Convolutional neural networks

Thu 17-08-2023

Nature uses only the longest threads to weave her patterns, so that each small piece of her fabric reveals the organization of the entire tapestry. – Richard Feynman

Following up on our Neural network primer column, this month we explore a different kind of network architecture: a convolutional network.

The convolutional network replaces the hidden layer of a fully connected network (FCN) with one or more filters (a kind of neuron that looks at the input within a narrow window).

Nature Methods Points of Significance column: Convolutional neural networks. (read)

Even through convolutional networks have far fewer neurons that an FCN, they can perform substantially better for certain kinds of problems, such as sequence motif detection.

Derry, A., Krzywinski, M & Altman, N. (2023) Points of significance: Convolutional neural networks. Nature Methods 20:.

Derry, A., Krzywinski, M. & Altman, N. (2023) Points of significance: Neural network primer. Nature Methods 20:165–167.

Lever, J., Krzywinski, M. & Altman, N. (2016) Points of significance: Logistic regression. Nature Methods 13:541–542.

# Neural network primer

Tue 10-01-2023

Nature is often hidden, sometimes overcome, seldom extinguished. —Francis Bacon

In the first of a series of columns about neural networks, we introduce them with an intuitive approach that draws from our discussion about logistic regression.

Nature Methods Points of Significance column: Neural network primer. (read)

Simple neural networks are just a chain of linear regressions. And, although neural network models can get very complicated, their essence can be understood in terms of relatively basic principles.

We show how neural network components (neurons) can be arranged in the network and discuss the ideas of hidden layers. Using a simple data set we show how even a 3-neuron neural network can already model relatively complicated data patterns.

Derry, A., Krzywinski, M & Altman, N. (2023) Points of significance: Neural network primer. Nature Methods 20:165–167.

Lever, J., Krzywinski, M. & Altman, N. (2016) Points of significance: Logistic regression. Nature Methods 13:541–542.

# Cell Genomics cover

Mon 16-01-2023

Our cover on the 11 January 2023 Cell Genomics issue depicts the process of determining the parent-of-origin using differential methylation of alleles at imprinted regions (iDMRs) is imagined as a circuit.

Designed in collaboration with with Carlos Urzua.

Our Cell Genomics cover depicts parent-of-origin assignment as a circuit (volume 3, issue 1, 11 January 2023). (more)

Akbari, V. et al. Parent-of-origin detection and chromosome-scale haplotyping using long-read DNA methylation sequencing and Strand-seq (2023) Cell Genomics 3(1).

Browse my gallery of cover designs.

A catalogue of my journal and magazine cover designs. (more)

Thu 05-01-2023

My cover design on the 6 January 2023 Science Advances issue depicts DNA sequencing read translation in high-dimensional space. The image showss 672 bases of sequencing barcodes generated by three different single-cell RNA sequencing platforms were encoded as oriented triangles on the faces of three 7-dimensional cubes.

My Science Advances cover that encodes sequence onto hypercubes (volume 9, issue 1, 6 January 2023). (more)

Kijima, Y. et al. A universal sequencing read interpreter (2023) Science Advances 9.

Browse my gallery of cover designs.

A catalogue of my journal and magazine cover designs. (more)

# Regression modeling of time-to-event data with censoring

Thu 17-08-2023

If you sit on the sofa for your entire life, you’re running a higher risk of getting heart disease and cancer. —Alex Honnold, American rock climber

In a follow-up to our Survival analysis — time-to-event data and censoring article, we look at how regression can be used to account for additional risk factors in survival analysis.

We explore accelerated failure time regression (AFTR) and the Cox Proportional Hazards model (Cox PH).

Nature Methods Points of Significance column: Regression modeling of time-to-event data with censoring. (read)

Dey, T., Lipsitz, S.R., Cooper, Z., Trinh, Q., Krzywinski, M & Altman, N. (2022) Points of significance: Regression modeling of time-to-event data with censoring. Nature Methods 19:1513–1515.

# Music video for Max Cooper's Ascent

Tue 25-10-2022

My 5-dimensional animation sets the visual stage for Max Cooper's Ascent from the album Unspoken Words. I have previously collaborated with Max on telling a story about infinity for his Yearning for the Infinite album.

I provide a walkthrough the video, describe the animation system I created to generate the frames, and show you all the keyframes

Frame 4897 from the music video of Max Cooper's Asent.

The video recently premiered on YouTube.

Renders of the full scene are available as NFTs.