I'm not real and I deny I won't heal unless I cry.let it gomore quotes

# art is science is art

See you at Shonan Meeting 167 — Formalizing Biomedical Visualization

# visualization + design

The 2019 Pi Day art celebrates digits of $\pi$ with hundreds of languages and alphabets. If you're a kid at heart—rejoice—there's a special edition for you!

# $\pi$ Approximation Day Art Posters

2019 $\pi$ has hundreds of digits, hundreds of languages and a special kids' edition.
2018 $\pi$ day
2017 $\pi$ day
2016 $\pi$ approximation day
2016 $\pi$ day
2015 $\pi$ day
2014 $\pi$ approx day
2014 $\pi$ day
2013 $\pi$ day
Circular $\pi$ art

The never-repeating digits of $\pi$ can be approximated by $22/7 = 3.142857$ to within 0.04%. These pages artistically and mathematically explore rational approximations to $\pi$. This 22/7 ratio is celebrated each year on July 22nd. If you like hand waving or back-of-envelope mathematics, this day is for you: $\pi$ approximation day!

Want more math + art? Discover the Accidental Similarity Number. Find humor in my poster of the first 2,000 4s of $\pi$.

There are two kinds of $\pi$ Approximation Day posters.

The first uses the Archimedean spiral for its design, which I've used before for other numerical art. The second packs warped circles, whose ratio of circumference to average diameter is $22/7$ into what I call $\pi$-approximate circular packing.

The digits of π assembled along an Archimedean spiral.
The first 3,422 digits of π. (PNG, BUY ARTWORK)
The first 123,201 digits of π. (PNG, BUY ARTWORK)

In the Approximation Day poster, all $m/n$ rational approximations to $\pi$ are shown as circles on a spiral. The circle at the start of the spiral (top) corresponds to $m=1$. The circle at the center of the spiral corresponds to $m=10000$.

Each circle is colored by the accuracy of the best possible approximation $m/n$ according to the color scheme below, which is the legend inset. For example, for $m=22$ the best approximation has $n=7$.

Each circle in the spiral represents an approximation $m/n$ of $\pi$ for $m=1...10000$. The color of the circle encodes the accuracy of the most accurate approximation for that value of $m$. The accuracy is expressed in $log_{10}$. The values of $m$ and $n$ represent the approximation with smallest $m$ at that accuracy.

The accuracy cutoffs were selected to assign roughly the same number of points to each category.

The location of the best approximations within each accuracy window is shown below.

Best approximations within accuracy windows represented by the progression of colored circles.
VIEW ALL

# Using Circos in Galaxy Australia Workshop

Thu 20-02-2020

A workshop in using the Circos Galaxy wrapper by Rasche and Hiltemann. Event organized by Australian Biocommons.

Using Circos in Galaxy Australia workshop. (zoom)

Galaxy wrapper training materials, Saskia Hiltemann, Helena Rasche, 2020 Visualisation with Circos (Galaxy Training Materials).

# Essence of Data Visualization in Bioinformatics Webinar

Thu 20-02-2020

My webinar on fundamental concepts in data visualization and visual communication of scientific data and concepts. Event organized by Australian Biocommons.

Essence of Data Visualization in Bioinformatics webinar. (zoom)

# Markov models — training and evaluation of hidden Markov models

Thu 20-02-2020

With one eye you are looking at the outside world, while with the other you are looking within yourself.
—Amedeo Modigliani

Following up with our Markov Chain column and Hidden Markov model column, this month we look at how Markov models are trained using the example of biased coin.

We introduce the concepts of forward and backward probabilities and explicitly show how they are calculated in the training process using the Baum-Welch algorithm. We also discuss the value of ensemble models and the use of pseudocounts for cases where rare observations are expected but not necessarily seen.

Nature Methods Points of Significance column: Markov models — training and evaluation of hidden Markov models. (read)

Grewal, J., Krzywinski, M. & Altman, N. (2019) Points of significance: Markov models — training and evaluation of hidden Markov models. Nature Methods 17:121–122.

Altman, N. & Krzywinski, M. (2019) Points of significance: Hidden Markov models. Nature Methods 16:795–796.

Altman, N. & Krzywinski, M. (2019) Points of significance: Markov Chains. Nature Methods 16:663–664.

# Genome Sciences Center 20th Anniversary Clothing, Music, Drinks and Art

Tue 28-01-2020

Science. Timeliness. Respect.

Read about the design of the clothing, music, drinks and art for the Genome Sciences Center 20th Anniversary Celebration, held on 15 November 2019.

Luke and Mayia wearing limited edition volunteer t-shirts. The pattern reproduces the human genome with chromosomes as spirals. (zoom)

As part of the celebration and with the help of our engineering team, we framed 48 flow cells from the lab.

Precisely engineered frame mounts of flow cells used to sequence genomes in our laboratory. (zoom)

Each flow cell was accompanied by an interpretive plaque explaining the technology behind the flow cell and the sample information and sequence content.

The plaque at the back of one of the framed Illumina flow cell. This one has sequence from a patient's lymph node diagnosed with Burkitt's lymphoma. (zoom)

# Scientific data visualization: Aesthetic for diagrammatic clarity

Mon 13-01-2020

The scientific process works because all its output is empirically constrained.

My chapter from The Aesthetics of Scientific Data Representation, More than Pretty Pictures, in which I discuss the principles of data visualization and connect them to the concept of "quality" introduced by Robert Pirsig in Zen and the Art of Motorcycle Maintenance.

# Yearning for the Infinite — Aleph 2

Mon 18-11-2019

Discover Cantor's transfinite numbers through my music video for the Aleph 2 track of Max Cooper's Yearning for the Infinite (album page, event page).

Yearning for the Infinite, Max Cooper at the Barbican Hall, London. Track Aleph 2. Video by Martin Krzywinski. Photo by Michal Augustini. (more)

I discuss the math behind the video and the system I built to create the video.