Workshop on the analysis and integration of scRNA-seq datasets

Purpose: In this workshop, in session 1 we will give an overview of scRNA-seq data analysis steps such as quality control, preprocessing, normalization, cell annotation. Then we will move to the task of integrating multiple scRNA-seq datasets where we first show variations caused by batch effects or variations caused by biological factors. We will give an overview of existing scRNA-seq integration methods and provide an evaluation where we explain their advantages/disadvantages thoroughly. In session 2, for a few selected integration methods, we will provide a hands-on application to show how multiple scRNA-seq datasets can be integrated.

Selection Criteria: WG 1 or 2 members: Expertise in bioinformatics and/or OMICS data sets, preferentially with a focus on single-cell RNA-seq data analysis. Familiarity with R or Python is required.


  • Availability on March 23th, from 10 AM till 5 PM.
  • Own notebook to download and run the required software

Expected Outcome: Publication of the course material on Github for future references.

Host Institution: Antalya Bilim University, Antalya, Turkey

Venue: Belek, Antalya, Turkey

Instructors: Hilal Kazan, Cesim Erten, Yasin Kaymaz, Aissa Houdjdedj, Mekan Myradov

Timeframe: 23th March 2023 (whole day)

Attendees: On-site: 10x WG 1 members, 2x WG 2 members; Virtually: 10x WG 1 and/or WG 2 members (only for session 1)

Application deadline: 15th January 2023

Send applications to: Dr. Hilal Kazan, e-mail: or Dr. Cesim Erten, e-mail: (Workshop Coordinators)

Participant confirmation announcement: 23rd January 2023

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