cruk-summer-school-2021

Github repo for 2021 CRUK-CC Bioinformatics Summer School (https://tinyurl.com/crukss2021)

Introduction to RNA-seq data analysis - Extended Materials

Taught remotely

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

Supplementary materials

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

  1. Obtaining public data
  2. Raw read file format and QC
  3. Short read alignment with HISAT2
  4. QC of alignment
  5. Gene expression quantification
  6. Data exploration - extended
  7. Annotation and Visualisation - extended

Supplementary lessons

Introductory R materials:

Additional resources - Places to get help

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.

The materials have been rewritten/modified/corrected/updated by various contributors over the past 5 years including:

Abigail Edwards Ashley D Sawle Chandra Chilamakuri Dominique-Laurent Couturier Guillermo Parada González Jon Price Mark Dunning Mark Fernandes Oscar Rueda Sankari Nagarajan Stephane Ballereau Zeynep Kalender Atak

Apologies if we have missed anyone!