# CEPLAS RNA-Seq Workshop

## Key dates

- **Date**: August 22-24, 2022
- **Tutors**: [Alisandra Denton](https://www.ceplas.eu/en/research/people/dr-alisandra-denton/) and [Dominik Brilhaus](https://www.ceplas.eu/en/research/data-science-and-data-management/)
- **Location**: Building 25.41. Room 00.41 ([at ZIM HHU, Düsseldorf](https://www.zim.hhu.de/ueber-uns/lageplan-und-anreiseskizze))
- **Prerequisites**
  - Technical
    - Computers incl. required software and course material are provided during the course.
    - Participants *can* bring own laptops, but without guarantee (possible system-specific dependencies)
  - Expertise
    - Some pre-knowledge in programming may help, but is not required.
    - First (half) day will be an optional introduction.

## Schedule

| Time        | Section |
|:----------- | -------:|
| 9:00        |   Start |
| 10:00-10:20 |  Coffee |
| 12:00-13:00 |   Lunch |
| 15:00-15:20 |  Coffee |
| ~17:00      |     End |

## Topics (*preliminary*)

- *[Optional, if needed]* Basic introduction to tools and programming (e.g. with Linux/Bash, R, Python)

- Introduction to read processing and quality control

- Introduction to read mapping and quantification

- Long and short reads
  - Transcriptome assembly

- Post-mapping analysis
  - Differential gene expression
  - Clustering
  - Functional annotation and enrichment
  - Visualization

## Registration

- **Participants**:
  - CEPLAS researchers of all levels
  - Open to non-CEPLAS researchers, if max. participant number is not reached
  - min. / max. participants: 10 / 20
- **Registration phase**: June 27th - July 20th

- **Topic wishlist**: If you would like to learn about specific topics or tools related to RNA-Seq data analysis, please raise them during the registration.

- **Basic Intro**: Please let us know your programming expertise and wether you interested in a basic introduction to programming.
