Preprocessing RNA-Seq data

Keywords

Pre-processing

Authors

Bert Overduin (@bert)

Type

• Lecture
• Practical

Description

Quality assessment and preprocessing of RNA-seq data. Description of FastQ format

Aims

Give an overview of preprocessing of RNA-seq data

Prerequisites

• Introduction to NGS
• Linux
• general knowledge of molecular biology

Target audience

beginner, biologist

Learning objectives

• Applying QC software and interpreting the output
• Deciding/performing necessary preprocessing steps

Materials

Part of the Edinburgh genomics introduction to RNA-seq data analysis

Data

• Original data: SRP019027
• Forward reads
• Reverse reads

Timing

Lecture + tutorial: 1.5h

Content stability

Stable. Date of last major update of the materials: 2014-11-24.

Technical requirements

• FastQC
• FastQmcf

Literature references

• None