Single-Cell RNA-Seq Data Analysis: A Practical Introduction
From 10x/Cell Ranger processing to Seurat-based clustering and multi-sample integration
Date: 23 - 25 March 2026
Timezone: Berlin
Language of instruction: English
Learn a complete, beginner-friendly single-cell workflow - from raw data processing and QC to cluster annotation, differential expression, and integration across samples.
In a nutshell
- Understand sequencing technologies for single-cell analysis (plate-based vs droplet-based)
- Process, QC and analyze scRNA-seq data with a structured, reproducible workflow
- Identify, visualize and annotate cell clusters using practical marker-based strategies
- Integrate multi-sample data and handle batch effects with confidence
Contact: ecSeq Bioinformatics GmbH, Sternwartenstr. 29, D-04103 Leipzig, Germany, Email: events@ecSeq.com
Keywords: Single cell RNA-seq, Seurat, 10X, cell ranger
Venue: PC-College, Stresemannstraße 78, 10963 Berlin, Germany
City: Berlin
Country: Germany
Postcode: 10963
Prerequisites:
This workshop is aimed at biologists and data analysts with no or little experience in developing computational pipelines for data analysis.
A basic understanding of molecular biology (DNA, RNA, gene expression, PCR, …) is assumed, as examples are discussed in that context.
Some familiarity with a command line interface (Linux/macOS) is helpful, and a minimal understanding of programming concepts can be beneficial — but neither is required. We start from the essentials and guide you step-by-step.
Clarity note: You will work in R/Seurat, but this is not a programming course - the focus is on analysis workflows and interpretation.
Learning objectives:
This workshop provides a thorough, hands-on introduction to single-cell RNA sequencing (scRNA-seq) data analysis. You will learn how to process, analyze, and integrate single-cell datasets using widely adopted tools and best practices.
We cover sequencing technologies, quality control and preprocessing, dimensionality reduction, clustering, trajectory inference, differential expression analysis, and multi-sample integration.
By the end of the workshop, you will be able to:
- Process 10x Chromium data with Cell Ranger and interpret key QC metrics
- Perform single-sample analysis in Seurat (filtering, normalization, PCA/UMAP, clustering, markers)
- Create diagnostic plots and make informed analysis decisions (not “click-and-hope”)
- Integrate datasets across samples/conditions, handle batch effects, and compare clusters via differential expression
Organizer: ecSeq Bioinformatics GmbH
Eligibility:
- First come first served
Target audience: Biologists, Molecular Biologists, Research Scientists
Capacity: 30
Event types:
- Workshops and courses
Credit / Recognition: Certificate
Cost basis: Cost incurred by all
Cost: € 1089.0 (EUR)
Activity log
