hands-on tutorial
1: RNA-Seq reads to counts
The questions this addresses are:
- How to convert RNA-seq reads into counts?
- How to perform quality control (QC) of RNA-seq reads?
- How to do this analysis efficiently in Galaxy?
The objectives are:
- Learn how RNA-seq reads are converted into counts
- Understand QC steps that can be performed on RNA-seq reads
- Generate interactive reports to summarise QC information with MultiQC
- Use the Galaxy Rule-based Uploader to import FASTQs from URLs
- Make use of Galaxy Collections for a tidy analysis
- Create a Galaxy Workflow that converts RNA-seq reads into counts
Licence: Creative Commons Attribution 4.0 International
Keywords: QC, Transcriptomics, collections, mouse
Target audience: Students
Resource type: hands-on tutorial
Version: 32
Status: Active
Prerequisites:
- Introduction to Galaxy Analyses
- Mapping
- Quality Control
- Reference-based RNA-Seq data analysis
- Rule Based Uploader
- Using dataset collections
Learning objectives:
Learn how RNA-seq reads are converted into counts
- Understand QC steps that can be performed on RNA-seq reads
- Generate interactive reports to summarise QC information with MultiQC
- Use the Galaxy Rule-based Uploader to import FASTQs from URLs
- Make use of Galaxy Collections for a tidy analysis
- Create a Galaxy Workflow that converts RNA-seq reads into counts
Date modified: 2024-02-13
Date published: 2018-09-23
Contributors: Belinda Phipson, Harriet Dashnow, Maria Doyle
Scientific topics: Transcriptomics
Activity log
