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rnaseq_tutorial is a tutorial and educational resource created by the Griffith Lab that guides users through the steps of RNA-seq data analysis. It includes working pipelines for alignment, differential expression, alternative splicing, visualization, and interpretation. It is designed to run in the cloud or local environments, providing introductory material on file formats, reference genomes / annotation, QC, mapping, quantifying expression, visualizing results, etc. The version in that repo is deprecated, but still maintains content for those wishing to follow the original published workflow. Includes instruction on cloud computing basics and using cloud environments for large data processing.
Features
- Modules covering alignment, quantification, differential expression, alternative splicing etcetera in RNA-seq workflows
- Includes instruction on cloud computing basics and using cloud environments for large data processing
- Details on the key file formats, reference genome preparation, annotation, and index creation for mapping etc.
- QC steps pre- and post-alignment, visualization and metrics to assess data quality etcetera
- Example scripts / pipeline code, demo data, setup instructions etcetera so users can run through the process hands-on
- Visualization and interpretation of results: plotting expression, exploring differential expression, etcetera
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MIT LicenseFollow RNAseq Tutorial
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