Hands-on training in genomic analysis of bacterial and eukaryotic pathogens
- Christine Boinett, Wellcome Sanger Institute, UK
- Claire Chewapreecha, Mahidol-Oxford Tropical Medicine Research Unit, Thailand
- Hao Chung The, OUCRU, Ho Chi Minh City, Vietnam
- Daryl Domman, University of New Mexico, USA
- Steve Doyle, Wellcome Sanger Institute, UK
- Adam Reid, (Lead Instructor) Wellcome Sanger Institute, UK
- Pham Thanh Duy, OUCRU, Ho Chi Minh City, Vietnam
- Friday 7th
- Introductions
- Monday 10th
- Module 1 - Artemis
- Module 2 - Linux & Scripting
- Tuesday 11th
- Module 3 - Short read mapping
- Wednesday 12th
- Module 4 - Phylogenetics
- Module 5 - Genome assembly
- Thursday 13th
- Module 6 - Transcriptomics
- Eukaryotic exercise
- Friday 14th
- Bacterial exercise
Download here - TO DO
Module 1 - Artemis
- Introductory presentation - TO DO
- Online manual
- Manual PDF version - TO DO
Module 2 - Linux & Scripting
- Introductory presentation - TO DO
- Online manual
- Manual PDF version - TO DO
Module 3 - Short Read Mapping
- Introductory presentation - TO DO
- Online manual
- Manual PDF version - TO DO
Module 4 - Phylogenetics
- Introductory presentation - TO DO
- Online manual - TO DO
- Manual PDF version - TO DO
Module 5 - Genome Assembly
- Introductory presentation - TO DO
- Online manual
- Manual PDF version - TO DO
Module 6 - Transcriptomics
- Introductory presentation
- Online manual
- Manual PDF version - TO DO
Task 1 - Sexual development in malaria parasites
- Online manual
- Manual PDF version - TO DO
Task 2 - Phylogenomics of Shigella
- Introductory presentation - TO DO
- Online manual - TO DO
- Manual PDF version - TO DO
Appendix
- Manual PDF version
Any reuse of the course materials, data or code is encouraged with due acknowledgement. WHAT DO WE WANT TO SAY HERE SPECIFICALLY
This work is licensed under a Creative Commons Attribution 4.0 International License.
