Belgium
online tutorial
Analysis of single-cell ATAC-seq data
training material for Single Cell ATACseq (for course https://training.vib.be/all-trainings/analysis-single-cell-atac-seq-data-0)
This training introduces participants to scATAC-seq (single-cell Assay for Transposase-Accessible Chromatin using sequencing), a technique that reveals chromatin accessibility with cell-type resolution. The course will guide you through the analysis of scATAC-seq data in R, using ArchR, and it will also discuss the results obtained by CellRanger-ATAC. By the end of the training, participants will be able to process their own scATAC-seq datasets, and integrate results with scRNA-seq data to explore mechanisms of gene regulation.
Keywords: ATAC-seq, ArchR
Target audience: Life scientists
Resource type: online tutorial
Version: 1.0
Learning objectives:
Describe the principles and workflow of scATAC-seq technology and scATAC-seq analysis
Interpret output files and quality reports generated by CellRanger-ATAC
Apply ArchR to perform quality control, doublet inference, clustering, annotation, and peak calling of scATAC-seq datasets
Visualize the data in a Genome Browser
Integrate scATAC-seq data with scRNA-seq data to infer gene regulatory networks
Possibility to analyse your own scATAC-seq data under the guidance of experts
Date created: 2025-12-18
Contributors: VIB
Activity log
