e-learning
Pre-processing of 10X Single-Cell RNA Datasets
Abstract
Single-cell RNA-seq analysis is a rapidly evolving field at the forefront of transcriptomic research, used in high-throughput developmental studies and rare transcript studies to examine cell heterogeneity within a populations of cells.
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 10X?
- What is STARsolo and what is Cell Ranger?
- What are BCL and MTX files?
- What is an HDF5 file, and why is it important?
Learning Objectives
- Demultiplex single-cell FASTQ data from 10X Genomics
- Learn about transparent matrix formats
- Understand the importance of high and low quality cells
Licence: Creative Commons Attribution 4.0 International
Keywords: 10x, Single Cell
Target audience: Students
Resource type: e-learning
Version: 9
Status: Active
Prerequisites:
- Dealing with Cross-Contamination in Fixed Barcode Protocols
- Introduction to Galaxy Analyses
- Pre-processing of Single-Cell RNA Data
Learning objectives:
- Demultiplex single-cell FASTQ data from 10X Genomics
- Learn about transparent matrix formats
- Understand the importance of high and low quality cells
Date modified: 2024-10-04
Date published: 2019-09-11
Contributors: Daniel Blankenberg, Hans-Rudolf Hotz, Mehmet Tekman, Wendi Bacon
Scientific topics: Transcriptomics
External resources:
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