Skip to content

Brown CBC's DEseq Workshop 1 Materials

Docs nbviewer License

Workshop Topics

This workshop, 'RNA-seq QC and Exploratory Data Analysis Using Bioconductor Workshop', is designed to expand upon the Bioconductor training provided in the first Bioconductor workshop; it is an intermediate-level lecture that presupposes some knowledge of R like that found in our 'Fundamentals of R' workshop. The topics presented herein include the following:

  • Standard exploratory analyses for RNA-seq Data
  • Cleaning data / removing artefacts
  • Transformations for improving model fit
  • Box plots for between-sample distribution comparison
  • PCA and MDS plotting

Notebook

To access a read-only version of the workshop notebooks (complete with full output), please click the above link; you will be redirected to Jupyter's NBViewer utility. Simply click the name of the notebook and it will be rendered as HTML.

Authors

Andrew Leith, Levi Waldron

Contact

For assistance, contact cbc-help@brown.edu - this is our general help line, so please specify that your issue is with this site's contents