Practical Course in Bioinformatics / Software lab

Location: MTZ Seminar Room, Pauwelstr, 19; 3rd Floor, Corridor B room 3.04.

Regular Dates: Monday 9:30-12:30 (starting 14.04.2015)

Language: English

Prerequisite (desirable): Introduction to Bioinformatics

Credits: 7 (10 with extra work)

Lecturers: Ivan G. Costa, Manuel Allhoff

Evaluation: 20% protoypes / 60% final project / 20% presentation

Campus Description:  Bioinformatik Praktikum 

We will cover the usage and development of bioinformatic methods for analysis of next generation sequencing data. The lab task will be based on the implementation of a full bioinformatics pipeline including: integration of low-level analysis tools (i.e. short sequencing aligner), development of a method for high level analysis (i.e. detection of Single-nucleotide polymorphism) and generation of a biology friendly interface for simple operations (web interface). We will provide real data as disease vs. normal individuals as case studies to be analysed by students.

Schedule (initial)

13.04.2015 - Introduction to Problems

 20.04.2015 – Practical Example SNP Calling | Exercises | Installation

 27.04.2015 – SNP Caller with Python | Exercises

 04.05.2015 – CSE Talk | Project Description

11.05.2015 – Project Development

18.05.2015 – Project Development

1.06.2015 – Using RWTH HPC | Examples

8.06.2015 – Project Development

15.06.2015 – Project Development

22.06.2015 – Project Development

 29.06.2015 – Final Presentation

Relevant Material

Online course from EBI. Only these lectures are of direct interest:

Online course Pavzner: