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    90 repositories

    • SCWorkflow

      Public
      Workflow Package for Analysis of Single Cell Data
      R
      •
      MIT License
      •2•2•7•2•Updated Oct 27, 2026Oct 27, 2026

    • gsva-analysis

      Public
      Portable GSVA application derived from canonical OMIX source.
      R
      •
      MIT License
      •0•0•0•0•Updated Oct 27, 2026Oct 27, 2026

    • OMIX

      Public
      R
      •
      MIT License
      •0•0•13•1•Updated Oct 26, 2026Oct 26, 2026

    • differential-expression-analysis

      Public
      Portable differential-expression analysis application derived from canonical OMIX source.
      R
      •
      MIT License
      •0•0•0•0•Updated Oct 26, 2026Oct 26, 2026

    • l2p-single-pathway-analysis

      Public
      Portable L2P Single pathway analysis application derived from canonical OMIX source.
      R
      •0•0•0•0•Updated Oct 25, 2026Oct 25, 2026

    • multi-correlation-analysis

      Public
      Containerized gene-gene correlation analysis with category-specific heatmaps and significance tables.
      R
      •0•0•1•0•Updated Oct 25, 2026Oct 25, 2026

    • volcano-plot

      Public
      Portable Volcano Plot application derived from canonical OMIX source.
      R
      •0•0•0•0•Updated Oct 25, 2026Oct 25, 2026

    • limma-analysis

      Public
      Portable Limma analysis application derived from canonical OMIX source.
      R
      •0•0•0•0•Updated Oct 25, 2026Oct 25, 2026

    • gene-boxplots

      Public
      Portable gene boxplot application derived from canonical OMIX source.
      R
      •
      MIT License
      •0•0•0•0•Updated Oct 25, 2026Oct 25, 2026

    • expression-heatmap

      Public
      Containerized annotated expression heatmaps for local, HPC, and OncoChat use.
      R
      •
      MIT License
      •0•0•0•0•Updated Oct 25, 2026Oct 25, 2026

    • survival-signature-pipeline

      Public
      Reusable R-based survival analysis pipeline for expression signatures and genes, with reproducible cohort, subtype, and pooled multi-dataset workflows.
      R
      •
      MIT License
      •0•0•8•0•Updated Oct 25, 2026Oct 25, 2026

    • OMIX-Seurat-Pseudobulk

      Public
      Code Ocean deployment adapter for the canonical OMIX Seurat Pseudobulk module
      R
      •0•0•0•0•Updated Oct 24, 2026Oct 24, 2026

    • OMIX-Limma-Analysis

      Public
      Code Ocean deployment adapter for canonical OMIX Limma Analysis
      R
      •0•0•0•0•Updated Oct 23, 2026Oct 23, 2026

    • OMIX-L2P-Single

      Public
      R
      •0•0•1•0•Updated Oct 22, 2026Oct 22, 2026

    • OMIX-GSVA

      Public
      Code Ocean deployment adapter for the canonical OMIX GSVA module
      R
      •0•0•0•0•Updated Oct 20, 2026Oct 20, 2026

    • OMIX-GSEA-Preranked-Legacy

      Public
      R
      •0•0•1•2•Updated Oct 19, 2026Oct 19, 2026

    • OMIX-DEG-Analysis

      Public
      Review-stage paired differential expression analysis for OMIX
      R
      •0•0•0•0•Updated Oct 14, 2026Oct 14, 2026

    • OMIX-GSEA-Filters-Legacy

      Public
      Code Ocean deployment adapter for OMIX GSEA result filtering
      R
      •0•0•0•0•Updated Oct 1, 2026Oct 1, 2026

    • OMIX-L2P-Multi

      Public
      R
      •0•0•1•0•Updated Oct 1, 2026Oct 1, 2026

    • OMIX-Volcano-Plot

      Public
      R
      •0•0•1•0•Updated Oct 1, 2026Oct 1, 2026

    • OMIX-GSEA-Visualization-Legacy

      Public
      R
      •0•0•0•0•Updated Sep 30, 2026Sep 30, 2026

    • OMIX-Gene-Boxplots

      Public
      Code Ocean deployment adapter for the canonical OMIX Gene Boxplots module
      R
      •0•0•0•0•Updated Sep 30, 2026Sep 30, 2026

    • ShinyQC-Inspector

      Public
      This application will allow for inspection of PCA outlier data, associating it with quality metrics
      R
      •
      MIT License
      •0•0•0•1•Updated Sep 22, 2026Sep 22, 2026

    • MOSuite-plot-pca-2D

      Public
      Code Ocean capsule for MOSuite - plot PCA 2D
      bulk-rna-seqcode-oceanmosuite
      bulk-rna-seqcode-oceanmosuite
      R
      •
      MIT License
      •0•0•0•0•Updated Sep 18, 2026Sep 18, 2026

    • MOSuite-create

      Public
      Code Ocean capsule for MOSuite - create multiOmicDataset from csv/tsv files
      bulk-rna-seqcode-oceanmosuite
      bulk-rna-seqcode-oceanmosuite
      R
      •
      MIT License
      •0•0•1•0•Updated Sep 18, 2026Sep 18, 2026

    • MOSuite-filter-diff

      Public
      Code Ocean capsule for MOSuite - filter differential expression analysis results
      bulk-rna-seqcode-oceanmosuite
      bulk-rna-seqcode-oceanmosuite
      R
      •
      MIT License
      •0•0•0•0•Updated Sep 18, 2026Sep 18, 2026

    • MOSuite-plot-expr-heatmap

      Public
      Code Ocean capsule for MOSuite - plot expression heatmap
      bulk-rna-seqcode-oceanmosuite
      bulk-rna-seqcode-oceanmosuite
      R
      •
      MIT License
      •0•0•0•0•Updated Sep 17, 2026Sep 17, 2026

    • MOSuite-plot-venn-diagram

      Public
      Code Ocean capsule for MOSuite - Plot Venn Diagram
      bulk-rna-seqcode-oceanmosuite
      bulk-rna-seqcode-oceanmosuite
      R
      •
      MIT License
      •0•0•1•1•Updated Sep 17, 2026Sep 17, 2026

    • MOSuite-filter-counts

      Public
      Code Ocean capsule for MOSuite - filter low counts
      bulk-rna-seqcode-oceanmosuite
      bulk-rna-seqcode-oceanmosuite
      R
      •
      MIT License
      •0•0•0•0•Updated Sep 17, 2026Sep 17, 2026

    • MOSuite-batch-correct-counts

      Public
      Code Ocean capsule for MOSuite - batch correct counts
      bulk-rna-seqcode-oceanmosuite
      bulk-rna-seqcode-oceanmosuite
      R
      •
      MIT License
      •0•0•0•0•Updated Sep 17, 2026Sep 17, 2026
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