Notebooks

• BULLKpy - TCGA RNAseq data
• 1. Imports and settings
• 2. Load data into AnnData and BULLKpy object
• 3. Quality Control and preprocessing
• 4. PCA and bidimensional representation
• 5. Clustering and define groups
• 6. Genes and Gene Signatures
• 7. Data Exploration
• 8. Correlations & Associations
• 9. Markers and Differential expression
• 10. Pathway and Gene Set Enrichment Analysis
• 11. Metaprograms and Tumor Heterogeneity
• 12. General Plots
• 13. Utilities