Overview:
This application is a specialized platform developed for the GSC-3587 project.
It provides comprehensive capabilities for gene expression analysis and high-quality data visualization, mirroring the DESeq2 analysis pipeline (DEseq.R).


Scope of Work:
i. Dimensional Reduction analysis (PCA, UMAP))
ii. Quality control (VST PCA, sample distance, outlier flagging)
iii. Model 1 — Global paired DESeq2 (DSS / HR / Immune cluster contrasts, all samples)
iv. Model 2 — Interaction DESeq2 (Compartment x DSS/HR/Immune cluster)
v. Model 3 — Subset analyses (Epithelium-only, Stroma-only)



Feedback welcome: Alireza Heravi Moussavi at amoussavi@bcgsc.ca