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Introduction to RNA-seq data analysis - Extended Materials

19th - 21st May 2020

Taught remotely

Bioinformatics Training, Craik-Marshall Building, Downing Site, University of Cambridge

![](images/CRUK_Cambridge_Major Centre logo.jpg)

These files contain some additional information and exercises not included during the taught course.

Day 1

  1. Raw read file format and QC

  2. Quantification with SubRead

Day 2

  1. RNA-seq Pre-processing

Day 3

  1. Annotation and Visualisation of RNA-seq results

  2. Gene-set testing

Source Materials for Practicals

The all of the lecture slides and other source materials, including R code and practical solutions, can be found in the course's Github repository

Supplementary lessons

Introductory R materials:

Additional RNAseq materials:

Data: Example Mouse mammary data (fastq files): https://figshare.com/s/f5d63d8c265a05618137

Additional resources

Bioconductor help
Biostars
SEQanswers

Acknowledgements

This course is based on the course RNAseq analysis in R prepared by Combine Australia and delivered on May 11/12th 2016 in Carlton. We are extremely grateful to the authors for making their materials available; Maria Doyle, Belinda Phipson, Matt Ritchie, Anna Trigos, Harriet Dashnow, Charity Law.