├── .gitignore ├── Final Project ├── Final Project.Rproj ├── README.md ├── counts_rsem.csv.gz ├── meta_data.csv └── metastasis_genesets │ ├── artega_sig.txt │ ├── mammaprint_sig_new.txt │ └── werb_49_metastasis_sig.txt ├── Module #1 - R & RNASeq Review ├── Module #1 - R & RNASeq Review.Rproj ├── README.md ├── module_1.R ├── module_1.pptx └── pbmc3k_filtered_gene_bc_matrices.tar.gz ├── Module #2 - scRNA-Seq data preparation ├── Module #2 - scRNA-Seq data preparation.Rproj ├── README.md ├── html_summaries_examples │ ├── web_summary_TC71_3_new.html │ └── web_summary_TC71_3_old.html ├── module_2.R └── module_2.pptx ├── Module #3 - Manifold learning for scRNA-Seq ├── Module #3 - Manifold learning for scRNA-Seq.Rproj ├── README.md ├── module_3.R └── module_3.pptx ├── Module #4 - Biological Interpretation ├── Brain_Non-Myeloid-counts.small.csv.gz ├── CellMarker_PBMC.csv ├── Module #4 - Biological Interpretation.Rproj ├── README.md ├── Wes_20210302_Tcells_analysis_pipeline.R ├── module_4.R └── module_4.pptx ├── Module #5 - 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