e-learning
Analysis of plant scRNA-Seq Data with Scanpy
Abstract
Single cell RNA-seq analysis is a cornerstone of developmental research and provides a great level of detail in understanding the underlying dynamic processes within tissues. In the context of plants, this highlights some of the key differentiation pathways that root cells undergo.
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
- Can we reclaim cell markers using a different analysis method?
- Are highly variable genes paramount to the analysis?
Learning Objectives
- Perform filtering, dimensionality reduction, and clustering
- Generate a DotPlot emulating the original paper using a different analysis tool
- Determine robust clusters across scRNA-seq pipelines
Licence: Creative Commons Attribution 4.0 International
Keywords: Single Cell, paper-replication, plants
Target audience: Students
Resource type: e-learning
Version: 5
Status: Active
Prerequisites:
- Clustering 3K PBMCs with Scanpy
- Introduction to Galaxy Analyses
Learning objectives:
- Perform filtering, dimensionality reduction, and clustering
- Generate a DotPlot emulating the original paper using a different analysis tool
- Determine robust clusters across scRNA-seq pipelines
Date modified: 2024-06-14
Date published: 2021-04-08
External resources:
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