This one-week intensive summer school in bioinformatics will focus on data analysis and high throughput biology, with a special focus on R/Bioconductor and its application to a wide range of topics across bioinformatics and computational biology. The course is intended for researchers who are familiar with omics experimental technologies and their applications in biology, have had some exposure with R, and who want to learn or expand their bioinformatics skills.
The course will cover underlying theory and practical hands-on exercises. At the end of the course, participants should be able to run analysis workflows on their own omics data, adapt and combine different tools and make informed choices about bioinformatics data analysis strategies.
|8.30-9.00||Coffee and breakfast (on site)|
|9.00-9.30||Registration, help desk and opening remarks (slides)||Bioconductor core technologies (SE, Genomics ranges) (Rmd, html) (MM)||Gene set enrichment analysis (with practical) (slides pdf, html, Rmd) (MM)||High throughput sequencing data processing (slides) (CS, JM)||Single cell RNA-seq slides (KVB)|
|9.30-10.30||Talk: Bioinformatics at GSK Vaccines, Christophe Lambert|
|11.00-12.30||Introduction to R and Bioconductor (Rmd, html) (MM)||Visualisation (html (part 1) and slides (part 2) (LG)||Elements of statistics and machine learning (slides) (OC)||Practical: RNASeq (Rmd and html)||Mass spectrometry-based proteomics (slides, vignette Rmd html) (LG)|
|12.30-14.00||Lunch (on site)|
|14.00-15.30||Rmarkdown for reproducible research (slides) (LG)||Practical: Bioc core technologies (Rmd, html)||Practical: stats/ML (Rmd and html) (OC)||Bulk RNA-Seq (slides) (CS, JM)||Quantitative proteomics data analysis (slides and practical) (LC)|
|16.00-17.30||Practical: R/Bioconductor and Rmarkdown (Rmd, html)||Working with biological annotations (Rmd, html) (MM)||Principles of differential expression analysis (experimental design and batch effect) (slides) (CS)||Practical: RNASeq (Rmd and html)||Practical: proteomics|
|17.30-18.00||QA and day 1 wrap-up||QA and day 2 wrap-up||QA and day 3 wrap-up||QA and day 4 wrap-up||QA and workshop wrap-up|
Registrations are now closed.
We are happy to offer up to 20 scholarships of up to 1000 euros (500 euros for travelling and 500 euros for accommodation) to students and early career researchers.
The course material (lectures and practicals) will be made available on the course web page.
Participants are required to bring their own laptop with the most recent release versions of R and Bioconductor installed: R-3.6.x and Bioconductor 3.9 installed. Please make sure that your computer’s hardware is sufficiently powered (>4 GB RAM, > 2 GB free disk space), that you have a working wireless card, and that you have administrator rights. Please follow these software installation instructions before the workshop.
Prerequisites Participants should have had some exposure to R or have some experience with another scripting/programming language prior to the course, and feel at ease with the suggested preliminary material by Martin Morgan below.
All participants are invited to join for dinner in the Louvain House mezzanine on Wednesday at 7pm.
For inquiries related to the registration, scientific program, organisation, please contact us at firstname.lastname@example.org.
This code of conduct is developed based on the Bioc2019 conference code of conduct.
BSS2019 is dedicated to providing a supportive, collegial, and harassment-free experience for everyone, regardless of:
We do not tolerate harassment, intimidation, or bullying of participants in talks, workshops, poster sessions, social activities, or online. Sexual language and imagery is not appropriate. Participants violating these rules may be sanctioned or expelled from the event with no refund, at the discretion of the organisers.
Examples of unacceptable harassment, intimidation, and bullying behaviour
Harassment includes, but is not limited to:
Intimidation and bullying include, but are not limited to:
Participants asked to stop any harassing behaviour are expected to comply immediately.
If a participant engages in harassing behaviour, event organisers retain the right to take any actions to keep the event a welcoming environment for all participants. This includes warning the offender or expulsion from the event with no refund.
Event organisers may take action to redress anything designed to, or with the clear impact of, disrupting the event or making the environment hostile for any participants.
We expect participants to follow these rules at all event venues and event-related social activities. We think people should follow these rules outside event activities too! Reporting
If someone makes you or anyone else feel unsafe or unwelcome, please report it as soon as possible. Harassment and other code of conduct violations reduce the value of our event for everyone. We want you to be happy at our event. People like you make our event a better place.
You can make a personal report with Laurent Gatto or Axelle Loriot. You can contact them directly or by email at `email@example.com`.
When taking a personal report, our staff will ensure you are safe and cannot be overheard. They may involve other event staff to ensure your report is managed properly. Once safe, we’ll ask you to tell us about what happened. This can be upsetting, but we’ll handle it as respectfully as possible, and you can bring someone to support you. You won’t be asked to confront anyone and we won’t tell anyone who you are.
We value your attendance.
This summer school is organised in collaboration with GSK.
We would like to acknowledge financial support from GSK and thank the UCLouvain for administrative and logistic support.