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Circos at the EMBO NGS workshop in Tunis, Sept 15–25.

Little Fly, Thy Summer's Play...

In a collaboration with Derek Baccus from Pearson Science, Martin Krzywinski designed the cover illustration for the 3rd edition of iGenetics by Peter Russell.

The cover image shows a comparison of human and fruit fly genomes. The links indicate orthologous genes — genes in both genomes whose proteins are similar.

This cover won the cover award at 39th Annual 2009 Bookbuilders West Book Show.

Circos Collaborates with Wired

When Wired needed an inforgraphic to illustrate the complex world of relationships on the TV Series Lost, it turned to Circos.

The task was to visually represent about 60 relationships shared between 35 characters. The tableviewer utility, which applies Circos to visualizing tabular data, was perfect for creating the illustration. And thus, Circos says goodbye to the table.

Circos Collaborates with Wired

When Wired needed an inforgraphic to illustrate the complex world of relationships on the TV Series Lost, it turned to Circos.

The task was to visually represent about 60 relationships shared between 35 characters. The tableviewer utility, which applies Circos to visualizing tabular data, was perfect for creating the illustration.

Circos Collaborates with Wired

When Wired needed an inforgraphic to illustrate the complex world of relationships on the TV Series Lost, it turned to Circos.

In collaboration with Christy Sheppard, Wired's Art Director, Martin Krzywinski created the illustration for the April 22 2010 issue.

Circos Introduced in the New York Times

My first Circos infographic to be published in the New York Times introduces the idea of sequence similarity curves linking circularly composed ideograms.

Working with David Constantine, I illustrated the similarity between chromosome 1 of mouse, rhesus, chimp, and chicken to that of human.

One of the smaller panels in the infographic was subsequently used by the Alliance of Lupus Research in their Faces of Lupus II video.

Circos Sniffs out Dog Genetics in American Scientist

The completion of the draft version of the dog genome revealed large overlaps between dog and human genomes. Working with American Scientist, Martin Krzywinski generated an illustration showing blocks of similarity between the two genomes.

The illustration accompanies the article Genetics and the Shape of Dogs, by Elaine Ostrander.

NYT Article - Mapping the Epigenome

In collaboration with Jonathan Corum from the NYT, Martin Krzywinski created an illustration of data showing methylation on chromosome 22 in a variety of tissues.

The illustration accompanies the article Now: The Rest of the Genome, by Carl Zimmer.

Support

Google Discussion Group

Use the Google Group. Let other users benefit from your question. In turn, you can benefit from the community's answers.

Please do not email me with general questions about how to use Circos without first posting to the group. I receive a lot of questions and it can take me a while to respond. Likely, I will just point you back to the tutorials.

If your image uses confidential data try to frame your question without having to upload the data itself. Alternatively, anonymize the data or generate a random data set that is similar to yours. If this is impossible, send an email and explain the issue clearly, following the steps below.

Posting a question

When you post your question please include all data and configuration files—don't forget to include the ideogram.conf, ticks.conf, and the karyotype file.

Please do not use absolute paths in your configuration files since these will not work on my system. Use relative paths. For more details see the best practices tutorial. You don't need to send me housekeeping.conf and other files that are included in the Circos distribution.

Also include the version of Circos

> circos -v
circos | v 0.69-5 | 2 May 2017 | Perl 5.010000

If you are having trouble running Circos, please post the exact command you ran, along with the full output. If Circos is running but taking a long time or you suspect something else is going wrong, run it with

> circos -debug

Using Circos in Publications

If you are close to publication, I am happy to help you with image design, configuration and data processing. Please contact me.

Using Circos in your Lab

If you would like to incorporate Circos into your analysis workflow, I am happy to work with you to get it installed and integrated.