Basic Bioinformatics Course | Bioinformatics Portal

Training Overview

The training general objective is to provide the basic bioinformatics skills necessary to perform bioinformatics analysis. Specifically: train the participants to use the Linux operating system, perform Linux operations and gain bioinformatics skills such as data manipulation, analysis and use of genomics-related bioinformatics software.

This is purely online internship.

Course Requirement

Laptop / PC	Software and Internet
Core i3 processor or higher	Web Browser
4Gb memory or higher	Internet speed of 5Mbps or higher
Audio device (speaker or headphone)

Course Outline

Week 1	Introduction and Fundamentals Objective: To introduce the Linux operating system and basic shell commands to equip the students in for commandline data analysis. Introduction to Linux Using WSL on Windows and installation guide Linux file system, hard and soft links, working directory Concept of shell, Linux processes, Environment variables, PATH variables, Shell expansion, Scripts Using Bash to manipulate common data formats (FASTA, SAM, VCF)
Week 2	NGS data analysis for genotyping purposes Introduction to Second Generation Sequencing SNP Calling Pipeline Filtering and basic statistics
Week 3	Basic GWAS tutorial and Introduction to Internship Special Project
Week 4	Post GWAS using Rice SNP-Seek, Rice Galaxy, and RicePilaf, and intro to own project
Week 5	Special Project
Week 6	Special Project Final Presentation