Page Index - NU-CPGME/sl_workshop_2024 GitHub Wiki
36 page(s) in this GitHub Wiki:
- Home
- First International West Africa Symposium & Workshops on Infectious Disease
- PATHOGEN GENOMICS WORKSHOP
- bit.ly/SL-workshop
- Freetown, Sierra Leone
- Table of Contents
- Day 1
- Section 1A - Terminal and the Command Line
- Section 1B - Setting up Mamba and Creating Environments
- Section 1C - Sequencing File Types
- Section 1D - Short Read Quality Control and Trimming
- Section 1E - Short Read Sequence Assembly
- Day 2
- Section 2A - Genome Annotation
- Section 2B - Reference Based Alignment
- Section 2C - Nanopore Assembly
- Section 2D - Nanopore Alignment and Variant Calling
- Day 3
- Section 3A - Introduction to Phylogenetics
- Section 3B - R Basics
- Extras
- Section E1 - Basic Shell Programming
- Section E2 - Using Mac or Windows for Bioinformatics
- 1A Terminal and Command Line
- 1B Install Mamba and Environments
- 1C Sequencing File Types
- 1D Short Read Quality Control and Trimming
- 1E Short Read Sequence Assembly
- 2A Genome Annotation
- 2B Reference Based Alignment
- 2C Nanopore Assembly
- 2D Nanopore Alignment and Variant Calling
- 3A Introduction to Phylogenetics
- 3B R Basics
- E1 Basic shell programming
- E2 Using Mac or Windows Natively