Learning Circos
Bioinformatics and Genome Analysis
Fondazione Edmund Mach, San Michele all'Adige, Italy, 20 June 2019
v2.00 16 June 2019 Download PDF slides
v2.00 16 June 2019
A 1-day practical course in genomic data visualization with Circos. This material is part of the Bioinformatics and Genome Analysis course held at the Fondazione Edmund Mach in San Michele all'Adige, Italy. Materials also available here: course materials and PDF slides.
Quick links
MyPads | BCGA 2019 | 4-day Circos course | Circos documentation best practices getting started | Brewer palettes | Color resources | Nature Methods Points of View Points of Significance
Genomic Data Visualization with Circos
Thursday 20 June 2019 — Day 1
09h00 – 10h30 | Lecture 1 — Introduction to Circos
11h00 – 12h30 | Lecture (practical) 2 — Visualizing gene distribution and size in Yeast—the histogram data track
14h00 – 15h30 | Lecture (practical) 3 — Conservation in Yeast—the link data track
16h00 – 18h00 | Lecture (practical) 4 — Drawing the human genome
18h15 – 19h30 | Lecture (practical) 5 — Afterhours—Perl refresher
18h15 – 19h30 | Lecture (practical) 6 — Afterhours—Visualizing an Ebola strain
Concepts covered today
Circos configuration, common Circos errors, Circos debugging, ideograms, selecting ideograms with regular expressions, input data format, creating Circos data files, data tracks (histograms, heat map, tiles, links), color definitions and using transparency, Brewer palettes, dynamic data formatting rules, downloading files from UCSC genome browser, essential command-line tools and basic scripting,
A full day of Circos! Stay relaxed.
Follow along with the course files — shown in the tag right above this text. Below are the kinds of images you'll be creating today.
Let's start with Lecture 1.
