A 2- or 4-day practical mini-course in Circos, command-line parsing and scripting. This material is part of the Bioinformatics and Genome Analysis course held at the Institut Pasteur Tunis.
BCGA 2018 | 1-day Circos course | Circos documentation best practices getting started | Brewer palette swatches | Color resources | Nature Methods Points of View Points of Significance
Monday 10 December 2018 — Day 1
9h00 - 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 — Visualizing an Ebola strain
Tuesday 11 December 2018 — Day 2
9h00 - 10h30 | Lecture 1 — Drawing the human genome
11h00 - 12h30 | Lecture (practical) 2 — Downloading and drawing human genes
14h00 - 15h30 | Lecture (practical) 3 — Downloading and drawing segmental duplications
16h00 - 18h00 | Lecture (practical) 4 — Creating an image montage
Additional material — Day 3
9h00 - 10h30 | Lecture 1 — Visualization strategies
11h00 - 12h30 | Lecture (practical) 2 — Parsing clustal alignments on command line
14h00 - 15h30 | Lecture (practical) 3 — Parsing clustal alignments with Perl
16h00 - 18h00 | Lecture (practical) 4 — Plotting clustal alignments
Additional material — Day 4
9h00 - 10h30 | Lecture 1 — Perl data structure and regular expression refresher
11h00 - 12h30 | Lecture (practical) 2 — Parsing .maf Ebola strain alignments on the command line
14h00 - 15h30 | Lecture (practical) 3 — Parsing .maf Ebola strain alignments with Perl
16h00 - 18h00 | Lecture (practical) 4 — Visualizing Ebola strain alignments