Program 2027

NOTE: THIS PAGE IS UNDER CONSTRUCTION WITH A NEW TEACHER IN 2026

REMEMBER TO BRING A LAPTOP FOR EXERCISES

Lectures will be in person in building 341 in auditorium 23.

Lectures and exercises will take place on Discord (https://discord.gg/Qgw9M3SZA5). Please register with your full name. Will use Discord for online classes and collaboration with your project partners. Rather than emailing questions to the teaching staff, I encourage you to post your questions on discord.

The course has two main parts, the first half is lectures and exercises and the last half is project work ending with the exam on Friday 23rd of January 2026.

For the laptop if you have a secure laptop (e.g. work laptop from Statens Serum Institut for instance), please bring your personal laptop.

Course Program - January 2026

Monday, January 4 (Day 1)

Introduction - Next Generation Sequencing

9:00am-9:30am: Introduction to course (Lecture slides); Mick Westbury
9:30am-10:00am: Introduction to NGS (Lecture slides); Mick Westbury
10:00am-10:45am: The NGS revolution (Lecture slides); Mick Westbury
10:45am-11:00am: Break
11:00am-12:00pm: Exercise: Logging on to our pupil servers (Logging on to pupil system); Mick Westbury , Pilar Ballesteros Cuartero, Jayesh Jain
12:00pm-1:00pm: Lunch Break
1:00pm-1:30pm: Exercise: Logging on to our pupil servers (Logging on to pupil system); Mick Westbury , Pilar Ballesteros Cuartero, Jayesh Jain
1:30pm-2:15pm: Introduction to UNIX; (Video lectures to watch from "Unix intro.." to "Touching upon..."); (Unix exercises – possible answers here) (Basic UNIX notes) (Advanced UNIX and Pipes); Mick Westbury, Pilar Ballesteros Cuartero, Jayesh Jain
2:15pm-2:30pm: Break
2:30pm-3:30pm: Introduction to UNIX (continued); (Video lectures to watch from "Unix intro.." to "Touching upon..."); (Unix exercises – possible answers here) (Basic UNIX notes) (Advanced UNIX and Pipes); Mick Westbury, Pilar Ballesteros Cuartero, Jayesh Jain
3:30pm-4:00pm: First look at data (First look exercise); Mick Westbury, Pilar Ballesteros Cuartero, Jayesh Jain

Tuesday, January 5 (Day 2)

Data pre-processing & Alignment

9:00am-9:45am: Data basics (Lecture slides) (Data basics exercise) (Data basics exercise answers); Mick Westbury, Pilar Ballesteros Cuartero, Jayesh Jain
9:45am-10:00am: Break
10:00am-12:00pm: Data pre-processing (Lecture slides) (Data Preprocess exercise) (Data Preprocess exercise answers); Mick Westbury
12:00pm-1:00pm: Lunch Break
1:00pm-1:45pm: Alignment (Lecture slides); Mick Westbury
1:45pm-2:00pm: Break
2:00pm-4:00pm: Exercise: Alignment (Alignment exercise) (Alignment exercise answers); Mick Westbury, Pilar Ballesteros Cuartero, Jayesh Jain

Program 2027

Course Program - January 2026

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