Mapping Quality Control

Mapping Quality Control

Keywords

Alignment, BAM, QC

Authors

Bert Overduin (@bert)

Type

  • Lecture
  • Practical

Description

Perform QC on aligned data

Aims

Understand the importance of quality control aspects of alignment and perform the QC.

Prerequisites

  • Introduction to NGS
  • Linux
  • Quality control
  • Alignment
  • general knowledge of molecular biology

Target audience

beginner, biologist

Learning objectives

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

  • samtools

Literature references

  • None

Keywords: Alignment, BAM, QC

Authors: Bert Overduin @bert

Mapping Quality Control https://tess.elixir-europe.org/materials/mapping-quality-control Perform QC on aligned data Alignment, BAM, QC