Reference-based approaches to RNA-seq analysis
Trainer: Simon Andrews
Overview:
The session covers the standard parts of the QC, processing, visualisation, exploration and analysis of RNA-Seq data. It provides the theoretical background to the different steps as well as showing example of the practical application of each step. The session includes extensive practicals which allows learners to run an entire analysis as they would with their own data.
Learning outcomes:
After this section you should be able to:
- Interpret the theory of RNA-Seq analysis
- Analise raw data QC
- Map RNA-Seq data to a reference and analyse the quality of such mappings
- View and explore RNA-Seq data
- Perform differential expression analysis
- Review and visualise differential expression hits
- Validate Results
Materials:
- Trainer’s platform
- Main presentation
- Practical instructions
- Yeast data for mapping
- Mapped mouse data for seqmonk
- Additional materials
- Data II
- Multi-Condition RNA-Seq exercise
- Software installation instructions
- Unix training
- BAM file format
- BAM optional fields
- General user guide for SeqMonk
- Advanced analysis with SeqMonk
- SeqMonk – Intensity Difference Filter
- Visitories – Reporting system for SeqMonk
- How to use Visitories video
- Visitory DB