CPANG19 Computational PANgenomicsTimetable (provisional) |
Mon, Sep 9th |
Day #1
|
09:30 - 11:00 |
Getting to know each other and establishing teamwork
Introduction to the course objectives Understanding the limitations of linear reference genomes |
11:00 - 11:30 | Coffee Break |
11:30 - 12:30 | Understanding the limitations of linear reference genomes (cont.) |
12:30 - 14:00 | Lunch Break |
14:00 - 16:00 | Pangenomic data structures |
16:00 - 16:30 | Tea Break |
16:30 - 18:00 | Hello pangenome! (Build your first pangenome.) |
Tue, Sep 10th |
Day #2
|
09:30 - 11:00 |
Morning Wrap-up (what have we done so far?)
Navigating the pangenome (coordinates) |
11:00 - 11:30 | Coffee Break |
11:30 - 12:30 | Navigating the pangenome (coordinates) (cont.) |
12:30 - 14:00 | Lunch Break |
14:00 - 16:00 | Visualizing pangenome graphs |
16:00 - 16:30 | Tea Break |
16:30 - 18:00 | Applications: HLA, viruses, yeast, bacteria |
Wed, Sep 11th |
Day #3
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09:30 - 11:00 |
Morning Wrap-up (what have we done so far?)
Read mapping to pangenomes |
11:00 - 11:30 | Coffee Break |
11:30 - 12:30 | Align a read set |
12:30 - 14:00 | Lunch Break |
14:00 - 16:00 | Variant calling in a pangenome |
16:00 - 16:30 | Tea Break |
16:30 - 18:00 | Comparing to the linear approach |
Thu, Sep 12th |
Day #4
|
09:30 - 11:00 |
Morning Wrap-up (what have we done so far?)
Using an assembly graph as a reference |
11:00 - 11:30 | Coffee Break |
11:30 - 12:30 | Thinking about haplotypes |
12:30 - 14:00 | Lunch Break |
14:00 - 16:00 | Show and tell: Discussion of applications relevant to participants |
16:00 - 16:30 | Tea Break |
16:30 - 18:00 |
End-of-day wrap-up and general discussion of the outcomes
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Thu, Sep 13th |
Day #5
|
09:30 - 11:00 |
Morning Wrap-up (what have we done so far?)
Long read to graph alignment |
11:00 - 11:30 | Coffee Break |
11:30 - 12:30 | Error correction and SV calling |
12:30 - 14:00 | Lunch Break |
14:00 - 16:00 | Show and tell: Discussion of applications relevant to participants |
16:00 - 16:30 | Tea Break |
16:30 - 18:00 |
Final wrap-up and general discussion of the outcomes
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Course Homepage |
Instituto Gulbenkian de Ciência, Apartado 14, 2781-901 Oeiras, Portugal Last updated: July 29th 2019 |