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DESeq2 Tutorial for the analysis of RNA-seq data.

Based heavily on the main DESeq2 vignettes;

https://bioconductor.org/packages/devel/bioc/vignettes/DESeq2/inst/doc/DESeq2.html

Uses the RNA dataset generated from the paper;

"Comprehensive epigenomic profiling reveals the extent of disease-specific chromatin states and informs target discovery in ankylosing spondylitis"

http://doi.org/10.1016/j.xgen.2023.100306

Countdata is available from Zenodo and linked to in the script. For convienence a colData is supplied here from the supplementary table of the paper. As well as a file extracted from the GTF used for gene counts that links EMSEMBL ID with gene name.