Introduction to the Bioconductor project
Department of Statistics, University of Oxford
Sep 3, 2024
9:00 am - 5:00 pm ET
Instructors: Marcel Ramos from the Bioconductor Core Team
Helpers: Maria Doyle
General Information
Bioconductor Carpentries develops and teaches workshops on the fundamental data skills needed to conduct omics data analysis. Its target audience is experimental researchers who have little to no prior computational experience, and its lessons are domain specific, building on learners' existing knowledge to enable them to quickly apply skills learned to their own research. Participants will be encouraged to help one another and to apply what they have learned to their own research problems.
For more information on what we teach and why, please see our paper "Good Enough Practices for Scientific Computing".
Who: The course is aimed at graduate students and other researchers. The following prerequisites apply:
- Familiarity with R, especially the Introduction to R episode in the Introduction to data analysis with R and Bioconductor lesson.
- Familiarity with Object-oriented programming (in R or elsewhere).
- Familiarity with biological sequences and genomics
Where: 24-29 St Giles, Oxford, United Kingdom. Get directions with OpenStreetMap or Google Maps.
When: Sep 3, 2024. Add to your Google Calendar.
Requirements: Participants must bring a laptop with a Mac, Linux, or Windows operating system (not a tablet, Chromebook, etc.) that they have administrative privileges on. They should have a few specific software packages installed (listed below).
Accessibility: We are committed to making this workshop accessible to everybody. For workshops at a physical location, the workshop organizers have checked that:
- The room is wheelchair / scooter accessible.
- Accessible restrooms are available.
Materials will be provided in advance of the workshop and large-print handouts are available if needed by notifying the organizers in advance. If we can help making learning easier for you (e.g. sign-language interpreters, lactation facilities) please get in touch (using contact details below) and we will attempt to provide them.
Contact: Please email maria.doyle@ul.ie or marcel.ramos@sph.cuny.edu for more information.
Roles: To learn more about the roles at the workshop (who will be doing what), refer to our Workshop FAQ.
Registration
This is a 1-day in-person workshop only. Virtual attendance is not possible.
- Cost: 100 pounds (covers cost of workshop and tea/coffee breaks)
- Places are limited to 25 participants, on a first-come first-serve basis.
- A confirmation email with payment detail will be sent on a weekly basis from 15 July onwards. Registration will be final after payment. We will not be able to refund the registration fees.
- To register, please fill out the application form.
Code of Conduct
Everyone who participates in Bioconductor activities is required to conform to the Code of Conduct. This document also outlines how to report an incident if needed.
Schedule
Morning
| Workshop Overview |
| Introduction to Bioconductor |
| Installing Bioconductor packages |
| Getting help |
Afternoon
| S4 classes in Bioconductor |
| Working with biological sequences |
| Working with genomic ranges |
| END |
Setup
To participate in a Bioconductor workshop workshop, you will need access to software as described below. In addition, you will need an up-to-date web browser.
We maintain a list of common issues that occur during installation as a reference for instructors that may be useful on the Configuration Problems and Solutions wiki page.
The setup instructions for the Introduction to Bioconductor project workshop can be found on the workshop starting page.
Sponsors
