e-learning
Pre-processing of Single-Cell RNA Data
Abstract
Introduction
About This Material
This is a Hands-on Tutorial from the GTN which is usable either for individual self-study, or as a teaching material in a classroom.
Questions this will address
- What is single-cell?
- How do we process a batch?
- How do we process multiple batches?
- How do we check for cross-contamination?
Learning Objectives
- Demultiplex FASTQ data via UMI-tools
- Understand and validate the extraction of barcodes
- Obtain an overview of general alignment and quantification techniques
- Generate a count matrix for downstream single-cell RNA analysis
Licence: Creative Commons Attribution 4.0 International
Keywords: Single Cell
Target audience: Students
Resource type: e-learning
Version: 2
Status: Active
Prerequisites:
- An introduction to scRNA-seq data analysis
- Introduction to Galaxy Analyses
Learning objectives:
- Demultiplex FASTQ data via UMI-tools
- Understand and validate the extraction of barcodes
- Obtain an overview of general alignment and quantification techniques
- Generate a count matrix for downstream single-cell RNA analysis
Date modified: 2023-10-10
Date published: 2019-02-22
Contributors: Anika Erxleben, Bérénice Batut, Mehmet Tekman, Wolfgang Maier
Scientific topics: Transcriptomics
External resources:
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