PPTC PDX RNA Clustering & GSEA

Authors:	Jacob Pfeil Apexa Modi
Contact:	Jacob Pfiel (jpfeil@ucsc.edu), Apexa Modi (modia@email.chop.edu)
Organization:	UCSC, CHOP
Status:	In-process
Date:	2025-03-02

Introduction

This repo contains code for:

1. Tumormap clustering and GSEA
2. Create publication quality figures.

Details

• fgsea-analysis-stan-v8-tiger-2018-08-26.ipynb:
• analyze-post-stan-v8-2019-01-20.ipynb:
• make-stan-input-v8-2019-01-20.ipynb:
• multilevel-pdx-model-v8.stan:
• PPTC_GSEA_FigureCode_Final.Rmd: Creates pathway enrichment heatmap Figure 6C