Twenty — minutes — maybe — more.choose four wordsmore quotes

# pi: fun

2020 $\pi$ day art and the piku

# visualization + design

“Transcendental Tree Map” from Yearning for the Infinite. This video premiered on 2020 Pi Day. Music by Max Cooper. Animation by Nick Cobby and myself.
The 2020 Pi Day art celebrates digits of $\pi$ with piku (パイク) —poetry inspired by haiku.
They serve as the form for The Outbreak Poems.
A $\pi$ day music video!: Transcendental Tree Map premieres on 2020 Pi Day from Max Cooper's Yearning for the Infinite. Animation by Nick Cobby and myself. Watch live from Barbican Centre.

# $\pi$ 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 $\pi$.

## art of $\pi$ rational approximation

The poster shows the accuracy of 10,000 rational approximations of $\pi$ for each $m/n$ and $m=1...10000$. Read about the details of the method.

Accuracy of 10,000 rational approximations of $\pi$ for each $m/n$ and $m=1...10000$. (zoom, BUY ARTWORK)

## art of $\pi$-approximate packing

These posters show warped circles, which embody the 22/7 approximation of $\pi$, using a retro 1970's color scheme. Read about the details of the method.

Packing of warped circles that embody the 22/7 approximation of $\pi$. Here warped circles are clipped by perfect circles. The color scheme is 1970's retro. (zoom, BUY ARTWORK)
Packing of warped circles that embody the 22/7 approximation of $\pi$. Here perfect circles are clipped by warped circles. The color scheme is 1970's retro. (zoom, BUY ARTWORK)
Packing of warped circles that embody the 22/7 approximation of $\pi$. Here warped circles are clipped by perfect circles. The color scheme is 1970's retro. (zoom, BUY ARTWORK)
Packing of warped circles that embody the 22/7 approximation of $\pi$. Here perfect circles are clipped by warped circles. The color scheme is 1970's retro. (zoom, BUY ARTWORK)
Packing of warped circles that embody the 22/7 approximation of $\pi$. Here warped circles are clipped by perfect circles. The color scheme is 1970's retro. (zoom, BUY ARTWORK)
Packing of warped circles that embody the 22/7 approximation of $\pi$. Here perfect circles are clipped by warped circles. The color scheme is 1970's retro. (zoom, BUY ARTWORK)
Packing of warped circles that embody the 22/7 approximation of $\pi$. Here warped circles are clipped by perfect circles. The color scheme is 1970's retro. (zoom, BUY ARTWORK)
Packing of warped circles that embody the 22/7 approximation of $\pi$. Here perfect circles are clipped by warped circles. The color scheme is 1970's retro. (zoom, BUY ARTWORK)

# The Outbreak Poems

Tue 24-03-2020

I'm writing poetry daily to put my feelings into words more often during the COVID-19 outbreak.

$Panic can wait for tomorrow.$
$Regrets live on curves not tangents.$
$Small chances are never zero.$
$Month's last day waits for another year.$

# Deadly Genomes: Genome Structure and Size of Harmful Bacteria and Viruses

Tue 17-03-2020

A poster full of epidemiological worry and statistics. Now updated with the genome of SARS-CoV-2 and COVID-19 case statistics as of 3 March 2020.

Deadly Genomes: Genome Structure and Size of Harmful Bacteria and Viruses (zoom)

Bacterial and viral genomes of various diseases are drawn as paths with color encoding local GC content and curvature encoding local repeat content. Position of the genome encodes prevalence and mortality rate.

The deadly genomes collection has been updated with a posters of the genomes of SARS-CoV-2, the novel coronavirus that causes COVID-19.

Genomes of 56 SARS-CoV-2 coronaviruses that causes COVID-19.
Ball of 56 SARS-CoV-2 coronaviruses that causes COVID-19.
The first SARS-CoV-2 genome (MT019529) to be sequenced appears first on the poster.

# Using Circos in Galaxy Australia Workshop

Wed 04-03-2020

A workshop in using the Circos Galaxy wrapper by Hiltemann and Rasche. 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)