flscuts
Main functions used in flscuts
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add_souporcell_seurat()
- Add Souporcell Clustering Output to a Seurat Object
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annotate_nhood()
- Annotate Milo Neighborhoods with Cell Types
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iterative_LSI()
- Iterative Latent Semantic Indexing (LSI) for Single-Cell Data (Compatible with Monocle3 and Seurat) with optional UMAP
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make_nhoods()
- Make Milo Neighborhoods from Seurat Object
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project_data()
- Project Data into UMAP Embedding of Single-Cell Object (Compatible with Monocle3 and Seurat)
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plot_projection()
- Plot Projection of Projected Data onto Projector's UMAP Embedding (Compatible with Monocle3 and Seurat)
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test_nhoods()
- Test Milo Neighborhoods for Differential Abundance
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find_markers()
- Find Marker Genes for Differentially Abundant Neighborhoods
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adt_dotplot()
- Generate a Dot Plot with ADT Data from a Seurat Object
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aml_panel()
- Generate a Panel of Dot Plots for AML Markers
Additional functions
Helper functions to add or modify elements