Description
RNA-Seq Reproducible Reporting Practical
Turn analysis-ready RNA-Seq results into a clear, reproducible, publication-ready report.
This hands-on CDI Practical guides you through a complete reporting workflow using synthetic, analysis-ready RNA-Seq outputs. You will connect data provenance, quality-control evidence, differential expression results, functional enrichment, figures, interpretation, limitations, and software records in one Quarto project.
What you will practise
- planning a report around the research question and available evidence
- creating an input inventory and documenting provenance
- checking sample metadata, identifiers, required columns, and comparison direction
- summarizing library sizes and PCA results
- reporting differential expression with explicit effect direction and thresholds
- summarizing functional enrichment without overstating biological conclusions
- creating publication-ready plots, tables, and stand-alone figure captions
- recording methods, limitations, package versions, session information, and output manifests
- rendering a structured browser-ready RNA-Seq report with Quarto
- building portfolio-ready evidence of reproducible bioinformatics reporting skills
Included project files
- six synthetic, analysis-ready CSV inputs
- an R script that regenerates the example inputs
- the complete Quarto practical and section files
- CDI practical styling
- worked example figures, tables, reporting records, and reproducibility outputs
What you will produce
- sample, differential expression, top-gene, and enrichment summaries
- library-size, PCA, volcano, and enrichment plots
- publication-ready HTML tables
- methods, caption, limitation, and interpretation records
- package-version, session-information, checklist, and output-manifest files
- a reproducible HTML analysis report
Tools and prerequisites
The workflow uses R, Quarto, and the tidyverse, ggrepel, gt, here, and sessioninfo packages. Basic familiarity with R and RNA-Seq results is helpful. The practical starts from completed analysis outputs; raw FASTQ processing, alignment, count generation, and differential expression modelling are outside its scope.
How access works
Your purchase includes the browser-based practical and a downloadable project ZIP. Follow the guide online, download the project files, work at your own pace, and reuse the reporting structure with your own analysis-ready RNA-Seq outputs.
