training Schedule

Overview

Please be guided by the training schedule below:

Course Schedule Overview (detailed view)

S - Synchronous

A - Asynchronous

Week 1 Introduction and Fundamentals

Day 1 Resource Persons: Ken, Venice

• Introduction to training (S)

• Introduction to Linux (S)

• Using WSL on Windows and installation guide (S)

• Students install WSL and follow tutorial on Linux commandline (A)

Day 2 Resource Person: Jeff

• Linux file system, hard and soft links, working directory (S)

• Concept of shell, Linux processes, Environment variables, PATH variables, Shell expansion, Scripts (S)

• Students practice (A)

Day 3 Resource Person: Ken

• Working with text files in Linux : useful commands (S)

• Practice using the doc "Practical Bioinformatics Data Skills" (A)

Day 4 Resource Person: Nikki

• Using Bash to manipulate common data formats (FASTA, SAM, VCF) (S)

Day 5 Resource Person: Team

• Wrap-up of basic Linux training for bioinformatics and further topics (S)

Week 2 NGS data analysis (Days 6-10)

Resource Persons: Dima, Nikki, and Ken

• Introduction to Second Generation Sequencing

• SNP Calling Pipeline

• Filtering and basic statistics

• Wrap-up

Week 3 Basic GWAS tutorial and intro to own project (Resource persons: the Team)

Week 4 Introduction to post-GWAS analysis, SNP-Seek , and continuation of project activities

Week 5 Continuation of project activities