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Hive Plots

Hive plots are a type of layout algorithm that is designed to make sense out of very large networks. The method is quantitative — placement of nodes depends only on network properties.

Hive Plots - Rational Network Visualization / Martin Krzywinski @MKrzywinski mkweb.bcgsc.ca
In a hive plot, nodes are placed on linear axes, which are arranged radially. Nodes are mapped to axis based on topology (e.g. connectivity) or user categories. Network edges are shown as links between axis node points, and can be colored further by additional metadata.

Hive plots are an answer to the challenge of uninformative network hairball visualization.

Hive Plots - Rational Network Visualization / Martin Krzywinski @MKrzywinski mkweb.bcgsc.ca
In a hive plot, nodes are placed on linear axes, which are arranged radially. Nodes are mapped to axis based on topology (e.g. connectivity) or user categories. Network edges are shown as links between axis node points, and can be colored further by additional metadata.

Hive Plots - Rational Network Visualization / Martin Krzywinski @MKrzywinski mkweb.bcgsc.ca
Hive plots are excellent at showing alignments between more than two genomes. (High resolution on white or black)

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Hive Plots - Rational Network Visualization / Martin Krzywinski @MKrzywinski mkweb.bcgsc.ca
Hive plots are excellent at comparing ratios. Here each panel shows 24 ratios (8 between each axis pair).

RESOURCES

Hive Plots - Rational Network Visualization / Martin Krzywinski @MKrzywinski mkweb.bcgsc.ca
VIZBI 2011 Hive Plot Poster.

Hive Plots - Rational Network Visualization / Martin Krzywinski @MKrzywinski mkweb.bcgsc.ca
Introduction to hive plots.

Hive Plots - Rational Network Visualization / Martin Krzywinski @MKrzywinski mkweb.bcgsc.ca
Genome Informatics 2010 talk.

Genome Informatics Cover

I had the opportunity to design the cover of the Genome Informatics Conference program book. The cover shows sequences of some of the genes and viruses that appear in this conference's abstracts and uses the genome path algorithm previously used in the Deadly Genomes poster.

Read the details about the design.

Cover of Genome Informatics 2010 Program

Cover of Genome Informatics 2010 Program

Deadly Genomes — Run Away

The Deadly Genomes is a visualization of the size and structure of genomes of viruses and bacteria that are agents of prevalent human diseases. Their genomes are visualized as a path, and each organism is spaced on the poster according to the incidence and mortality of the disease.

The Deadly Genomes - Size and Structure of Deadly Viruses and Bacteria

This image reached the finalist stage at the 2009 National Science Foundation Visualization Challenge.


Our 10 year anniversary

December 2009 saw the 10th Anniversary of the Genome Sciences Center. Some commemorative swag was handed out, among which was a stainless steel water bottle with the following image.

Genome Sciences Center 10th Anniversary Commemorative Graphic - QR Code

The image contains a barcode called QR Code (learn more) which encodes the names of all current employees at the Center.

Visualizing Debates

Lexical analysis of 2008 US Presidential and Vice-Presidential Debates indicates that the speech patterns between candidates (especially those paired in a debate) are extremely similar and that the complexity of vice-presidential candidates is lower than presidential candidates (uniqueness is lower, repetition is higher).

Palin has the longest sentences, Biden repeats himself the most and has the smallest vocabulary, while patterns for Obama and McCain are eerily similar.

Use Atom feeds of candidates' word lists to create Wordles.


Optimizing Keyboard Layouts - carpalx

carpalx - keyboard layout optimizer

carpalx is a keyboard optimizer which rearranges letter positions on a keyboard to minimize typing effort. Discover the magical XBUL keyboard layouts which minimizes typing of English text. Or, if you dare, venture into the land of the disfigured TNWCLR keyboard layout which makes typing English text excruciatingly painful.

High Dynamic Time Range Photography (HDTR)

High Dynamic Time Range images (HDTR) are single-frame composites of a set of time-lapse photos.


Perl Workshops

The bioinformatics Perl workshop offers courses to help you learn Perl and apply it to your work. We have courses on introductory Perl, intermediate Perl, and others. Learn how to use map, grep and sort more efficiently or how to perform data analysis at the command line. The workshop is open to the public (given at the GSC 570 W 7th location) and all slides from each lecture are available online.

schemaball

schemaball generates circularly composited views of SQL database schemas


BAC Arrays


High-resolution 32k BAC array for aCGH studies of human genome.

clusterpunch

clusterpunch is a mini-benchmarker for clusters designed to monitor availability of resources


port knocking

portknocking is a network authentication method in which a client establishes a connection to a host which presents no open ports

Life of Alex

alex is a very famous pet rat, who had appearances in Genome Research and Maximum PC.


Tuple Color Encoding

color encoding of vectors Color::TupleEncode - Mapping tuples to colors and visually comparing numbers

Yes or No

yesorno (get answers to your problems - just answers)


Genome Coverage Tables

short-read sequencing genome coverage tables tables of read coverage for haploid, diploid and triploid genomes for a given sequencing redundancy

genome coverage simulator explore whole genome shotgun statistics

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Television Focus Pack 122392535, Sony Televisions
Automatic Swing Door Opener w/2 x Remote Controllers Handicap Do
Custom DIY Built Guitar Pedals Switches - Lot of 6 - Used For Pa
Rawlings Red Dot 11' Fastpitch Softballs - PX11RYLC
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Prothane 7-132-BL Body Mount Bushings Kit Black For Buick / Chev
‎Niagara Conservation ‎N9150K Furnace Filter Audible Indicator
Voltcraft lipo battery charger
Winter Hard Hat Liner, Cotton Shell, Thermal Fleece Lined, Shoul
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Typography

Letters - Introduction to Typography (PDF)


Image Color Summarizer

Image color summarizer produces statistics about an image's mean/median hue, saturation and intensity values. It's fun to play with and can be (eventually) used to auto-tag images based on color content.

Flickr stream

A collection of my photos on flickr


Lumondo Photography

Lumondo Photography is my commercial front-end.

Canon Lenses

Canon EF Lenses A f/ vs mm chart of all Canon EF lenses, and a few links to useful lens resources.


UBC Rockets

UBC model rocket launch competition was not without accidents.

Visualizing an MMRPG Class

I am a warden.


VIEW ALL

news + thoughts

Cancer Cell cover

Sat 23-04-2022

My cover design on the 11 April 2022 Cancer Cell issue depicts depicts cellular heterogeneity as a kaleidoscope generated from immunofluorescence staining of the glial and neuronal markers MBP and NeuN (respectively) in a GBM patient-derived explant.

LeBlanc VG et al. Single-cell landscapes of primary glioblastomas and matched explants and cell lines show variable retention of inter- and intratumor heterogeneity (2022) Cancer Cell 40:379–392.E9.

Martin Krzywinski @MKrzywinski mkweb.bcgsc.ca
My Cancer Cell kaleidoscope cover (volume 40, issue 4, 11 April 2022). (more)

Browse my gallery of cover designs.

Martin Krzywinski @MKrzywinski mkweb.bcgsc.ca
A catalogue of my journal and magazine cover designs. (more)

Nature Biotechnology cover

Sat 23-04-2022

My cover design on the 4 April 2022 Nature Biotechnology issue is an impression of a phylogenetic tree of over 200 million sequences.

Konno N et al. Deep distributed computing to reconstruct extremely large lineage trees (2022) Nature Biotechnology 40:566–575.

Martin Krzywinski @MKrzywinski mkweb.bcgsc.ca
My Nature Biotechnology phylogenetic tree cover (volume 40, issue 4, 4 April 2022). (more)

Browse my gallery of cover designs.

Martin Krzywinski @MKrzywinski mkweb.bcgsc.ca
A catalogue of my journal and magazine cover designs. (more)

Nature cover — Gene Genie

Sat 23-04-2022

My cover design on the 17 March 2022 Nature issue depicts the evolutionary properties of sequences at the extremes of the evolvability spectrum.

Vaishnav ED et al. The evolution, evolvability and engineering of gene regulatory DNA (2022) Nature 603:455–463.

Martin Krzywinski @MKrzywinski mkweb.bcgsc.ca
My Nature squiggles cover (volume 603, issue 7901, 17 March 2022). (more)

Browse my gallery of cover designs.

Martin Krzywinski @MKrzywinski mkweb.bcgsc.ca
A catalogue of my journal and magazine cover designs. (more)

Happy 2022 `\pi` Day—
three one four: a number of notes

Mon 14-03-2022

Celebrate `\pi` Day (March 14th) and finally hear what you've been missing.

“three one four: a number of notes” is a musical exploration of how we think about mathematics and how we feel about mathematics. It tells stories from the very beginning (314…) to the very (known) end of π (...264) as well as math (Wallis Product) and math jokes (Feynman Point), repetition (nn) and zeroes (null).

Martin Krzywinski @MKrzywinski mkweb.bcgsc.ca
Listen to `\pi` in the style of 20th century classical music. (details)

The album is scored for solo piano in the style of 20th century classical music – each piece has a distinct personality, drawn from styles of Boulez, Feldman, Glass, Ligeti, Monk, and Satie.

Each piece is accompanied by a piku (or πku), a poem whose syllable count is determined by a specific sequence of digits from π.

Check out art from previous years: 2013 `\pi` Day and 2014 `\pi` Day, 2015 `\pi` Day, 2016 `\pi` Day, 2017 `\pi` Day, 2018 `\pi` Day, 2019 `\pi` Day, 2020 `\pi` Day and 2021 `\pi` Day.

PNAS Cover — Earth BioGenome Project

Fri 28-01-2022

My design appears on the 25 January 2022 PNAS issue.

Martin Krzywinski @MKrzywinski mkweb.bcgsc.ca
My PNAS cover design captures the vision of the Earth BioGenome Project — to sequence everything. (more)

The cover shows a view of Earth that captures the vision of the Earth BioGenome Project — understanding and conserving genetic diversity on a global scale. Continents from the Authagraph projection, which preserves areas and shapes, are represented as a double helix of 32,111 bases. Short sequences of 806 unique species, sequenced as part of EBP-affiliated projects, are mapped onto the double helix of the continent (or ocean) where the species is commonly found. The length of the sequence is the same for each species on a continent (or ocean) and the sequences are separated by short gaps. Individual bases of the sequence are colored by dots. Species appear along the path in alphabetical order (by Latin name) and the first base of the first species is identified by a small black triangle.

Lewin HA et al. The Earth BioGenome Project 2020: Starting the clock. (2022) PNAS 119(4) e2115635118.

The COVID charts — hospitalization rates

Tue 25-01-2022

As part of the COVID Charts series, I fix a muddled and storyless graphic tweeted by Adrian Dix, Canada's Health Minister.

I show you how to fix color schemes to make them colorblind-accessible and effective in revealing patters, how to reduce redundancy in labels (a key but overlooked part of many visualizations) and how to extract a story out of a table to frame the narrative.

Browse all the COVID charts.

Martin Krzywinski @MKrzywinski mkweb.bcgsc.ca
Clear titles introduce the graphic, which starts with informative and non-obvious observations of the relationship between age, number of comorbidities, vaccination status and hospitalization rates. Supporting the story is a tidy table that gives you detailed statistics for each demographic. (more)

I value

hitchmas · τ manifesto · deep space · sublime sound · data viz · wcs · jarre · 10x · genius · biting wit · subversion · dt → photo · juggernauts · science education · other universes · Poland - Polska

me as a keyword list

aikido | analogies | animals | astronomy | comfortable silence | cosmology | dorothy parker | drumming | espresso | fundamental forces | good kerning | graphic design | humanism | humour | jean michel jarre | kayaking | latin | little fluffy clouds | lord of the rings | mathematics | negative space | nuance | perceptual color palettes | philosophy of science | photography | physical constants | physics | poetry | pon farr | reason | rhythm | richard feynman | science | secularism | swing | symmetry and its breaking | technology | things that make me go hmmm | typography | unix | victoria arduino | wine | words

Fisher Price Peek A Boo Building Stack Block Penguin Snow Replac

Fisher Price Peek A Boo Building Stack Block Penguin Snow Replac:当社のサービス部門は、インドで唯一のiso9001認定の電子機器サービスブランドです。 86%以上節約,【爆売りセール開催中!】,日本全国送料無料Fisher Price Peek A Boo Building Stack Block Penguin Snow Replac