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Bioweek 2017 single cell rnaseq

Bioweek: Single cell RNA-seq data analysis using Chipster
Date: 09.02.2018 9:00 - 09.02.2018 17:00
Location details: The event is organised at the CSC Training Facilities located in the premises of CSC at Keilaranta 14, Espoo, Finland. The best way to reach us is by public transportation; more detailed travel tips are available.
Language: english-language
lecturers: Maria Lehtivaara Eija Korpelainen
  • 60 for-finnish-academics
  • 280 for-others
The fee covers all materials, lunches as well as morning and afternoon coffees.
The seats are filled in the registration order. If a cancellation is received five (5) business days prior to the course, the course fee will be refunded with the exception of a handling fee of 10 €. For no-shows and cancellations after the cut of date no refunds will be made. Registration can be transferred to someone else from the same organization without additional charge.

Payment can be made with electronic invoicing, credit card, or direct bank transfer. Note that for electronic invoicing you need the operator and e-invoicing address (OVT code) of your organization. Please also note that invoice reference is needed for electronic invoicing in your organization, so please have this available when registering.
Additional Information

We will learn to preprocess DropSeq data (from raw FASTQ data into a digital expression matrix) and how to do clustering analysis with Seurat tools (10X Genomics data used in the exercises).

The free and user-friendly Chipster software is used in the exercises, so no previous knowledge of Unix or R is required, and the course is thus suitable for everybody.


…is a weeks worth of courses assembled especially with bioscientists in mind. Participate in all of them, or just pick the ones you find most interesting!

5.2. Introduction to base R

6.2. Data visualisation using RStudio and ggplot 

7.2. Computing intensive bioinformatics analysis on Taito  

8.2. Using cPouta cloud in bioinformatics

9.2. Single cell RNA-seq data analysis using Chipster 


9:00-10:30 Introduction to Chipster, Introduction to single-cell RNA-seq, Drop-seq data preprocessing

10:30-10:45 Coffee break

10:45-12:15 Drop-seq data preprocessing (lectures & exercises)

12:15-13:00 Lunch break

13:00-14:30 Drop-seq data preprocessing, Clustering analysis with Seurat tools (lectures & exercises)

14:30 -14:45 Coffee break

14:45-16:30 Clustering analysis with Seurat tools (lectures & exercises)

Course materials