├── DESeq2ErrorFix.R ├── KM_survival.R ├── LICENSE.md ├── README.md ├── RNASeqpipeline.sh ├── TI_monocle3.R ├── WGCNA.R ├── annotateSingleR.R ├── annotateSingleR_multipleRefs.R ├── convert_geneID_geneSymbols.R ├── dataManipulation.R ├── dataformats.R ├── files ├── GSE183947_long_format.txt.zip ├── conda_virtualEnv │ ├── Conda-commands.html │ ├── Conda-commands.pdf │ ├── environment2.yml │ ├── iris_script1.R │ ├── iris_script2.R │ └── renv.lock ├── counts_data.csv └── sample_info.csv ├── getData.R ├── installPackages.R ├── interactionTerms.R ├── liftcoordinates.R ├── microrray_RMA_normalize.R ├── rename_files.sh ├── runDESeq2.R ├── runHomer.sh ├── scATACSeq_downstream_workflow.R ├── scATACSeq_standard_workflow.R ├── setSeed.R ├── singleCell_CI_markers.R ├── singleCell_doublets.R ├── singleCell_integrate_harmony.R ├── singleCell_integration.R ├── singleCell_pseudoBulk.R ├── singleCell_standard_workflow.R ├── somatic_variant_calling_filtering_annotation_3.sh ├── somatic_variant_calling_get_reads_1.sh ├── somatic_variant_calling_preprocessing_2.sh ├── tcga_data_download.R ├── variant_calling.sh ├── variant_filtering_annotation.sh └── visualize_ggplot2.R /DESeq2ErrorFix.R: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/kpatel427/YouTubeTutorials/HEAD/DESeq2ErrorFix.R -------------------------------------------------------------------------------- /KM_survival.R: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/kpatel427/YouTubeTutorials/HEAD/KM_survival.R -------------------------------------------------------------------------------- /LICENSE.md: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/kpatel427/YouTubeTutorials/HEAD/LICENSE.md -------------------------------------------------------------------------------- /README.md: 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