14th - 15th of August 2018
9:00 - 17:00
Instructors: Henri van de Geest, Sven Warris
Helpers: Andrzej S. Czech
In this two day workshop you will learn about two most common long read sequencing technologies: Pacific Bioscience an Oxford Nanopore Technology. You will learn how to work with the data, perform assembly, mapping, and compare the results of both technologies.
Who: The workshop is intended for bioinformaticians or researchers who want to learn about application of latest sequencing technologies in genomics. No prior experience with PacBio or ONT sequencing data is required.
Where: Computer Room 89, Radix - Wageningen campus, Droevendaalsesteeg 1, 6708 PB Wageningen. Get directions with OpenStreetMap or Google Maps.
When: 14th - 15th of August 2018. Add to your Google Calendar.
Requirements: It is not necessary to bring a laptop. Workstations with preinstalled virtual machine with all data and tools will be provided. Basic knowledge of bioinformatics and genomics is a prerequisite. Participants will work in a Linux environment.
Contact: Please email a.s.czech@genetwister.nl for more information.
| 9:15 | Introduction & outline of the workshop |
| 10:00 | Introduction to VM, Linux environment and the data |
| 10:30 | Coffee break |
| 10:45 | QC and evaluation of long read data |
| 12:15 | Lunch |
| 13:00 | Assembly of long reads (and Illumina reads) |
| 15:00 | Coffee break |
| 15:30 | Assembly of long reads (and Illumina reads) part 2 |
| 17:00 | End of day 1 |
| 9:15 | Comparison and visualization of long read assemblies |
| 10:30 | Coffee break |
| 10:45 | Comparison and visualization of long read assemblies part 2 |
| 12:15 | Lunch |
| 13:00 | Validation of assemblies |
| 15:00 | Coffee break |
| 15:30 | Validation of assemblies |
| 16:30 | Summary of obtained results and closing |
| 17:00 | End of day 2 |