This work is licensed under a Creative Commons Attribution 4.0 International License.

Author: Martin Morgan^[Roswell Park Comprehensive Cancer Center, Buffalo, NY].
Last modified: May 23, 2019

This book contains workshops used in R / Bioconductor training. The workshops are divided into 3 sections:

• Learn (100-series chapters) contains material for beginning users of R and Bioconductor. The Bioconductor-related material is relevant even for experienced R users who are new to Bioconductor.

• Use (200-series chapters) contains workshops emphasizing use of Bioconductor for common tasks, e.g., bulk RNA-seq differential expression, ChIP-seq, single-cell analysis, gene set enrichment, and annotation.

• Develop (500-series chapters) contains workshops to help expert users hone their skills and contribute their domain-specific knowledge to the Bioconductor community.

To contribute a new workshop, open a BiocWorkshops issue asking to be added as a collaborator.

1. Package your workshop as an R package
2. Include a standard vignette in the vignettes directory
3. Put any extra files (images, .bib) in inst/vignettes and reference them in the vignette using system.file
4. Number 3 requires package chapter installation before vignette build or build_vignettes=TRUE when building the package.

Update the DESCRIPTION file adding packages utilized in your workshop to the Imports field.

Follow the numbering scheme above to classify your workshop by preceding your title with "Bioconductor 1xx:", "Bioconductor 2xx:", or "Bioconductor 5xx:". Final workshop numbers will be determined by an editor.

Please be aware of the following deadlines for the Bioconductor 2019 Conference in New York

• Mon May 27: draft workshop materials submitted to this Bioconductor GitHub repo as a pull request