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111 changes: 56 additions & 55 deletions _pkgdown.yaml
Original file line number Diff line number Diff line change
Expand Up @@ -19,61 +19,62 @@ navbar:
href: articles/get_started_v5_new.html
- text: "Vignettes"
menu:
- text: Introductory Vignettes
- text: "PBMC 3K guided tutorial"
href: articles/pbmc3k_tutorial.html
- text: "Data visualization vignette"
href: articles/visualization_vignette.html
- text: "SCTransform, v2 regularization"
href: articles/sctransform_vignette.html
- text: "Using Seurat with multi-modal data"
href: articles/multimodal_vignette.html
- text: "Seurat v5 Command Cheat Sheet"
href: articles/essential_commands.html
- text: -------
- text: Data Integration
- text: "Introduction to scRNA-seq integration"
href: articles/integration_introduction.html
- text: "Integrative analysis in Seurat v5"
href: articles/seurat5_integration.html
- text: "Mapping and annotating query datasets"
href: articles/integration_mapping.html
- text: -------
- text: Multi-assay data
- text: "Dictionary Learning for cross-modality integration"
href: articles/seurat5_integration_bridge.html
- text: "Weighted Nearest Neighbor Analysis"
href: articles/weighted_nearest_neighbor_analysis.html
- text: "Integrating scRNA-seq and scATAC-seq data"
href: articles/seurat5_atacseq_integration_vignette.html
- text: "Multimodal reference mapping"
href: articles/multimodal_reference_mapping.html
- text: "Mixscape Vignette"
href: articles/mixscape_vignette.html
- text: -------
- text: Massively scalable analysis
- text: "Sketch-based analysis in Seurat v5"
href: articles/seurat5_sketch_analysis.html
- text: "Sketch integration using a 1 million cell dataset from Parse Biosciences"
href: articles/ParseBio_sketch_integration.html
- text: "Map COVID PBMC datasets to a healthy reference"
href: articles/COVID_SCTMapping.html
- text: "BPCells Interaction"
href: articles/seurat5_bpcells_interaction_vignette.html
- text: -------
- text: Spatial analysis
- text: "Analysis of spatial datasets (Imaging-based)"
href: articles/seurat5_spatial_vignette_2.html
- text: "Analysis of spatial datasets (Sequencing-based)"
href: articles/spatial_vignette.html
- text: -------
- text: Other
- text: "Cell-cycle scoring and regression"
href: articles/cell_cycle_vignette.html
- text: "Differential expression testing"
href: articles/de_vignette.html
- text: "Demultiplexing with hashtag oligos (HTOs)"
href: articles/hashing_vignette.html
- text: "Introductory Vignettes"
menu:
- text: "PBMC 3K guided tutorial"
href: articles/pbmc3k_tutorial.html
- text: "Data visualization vignette"
href: articles/visualization_vignette.html
- text: "SCTransform, v2 regularization"
href: articles/sctransform_vignette.html
- text: "Using Seurat with multi-modal data"
href: articles/multimodal_vignette.html
- text: "Seurat v5 Command Cheat Sheet"
href: articles/essential_commands.html
- text: "Data Integration"
menu:
- text: "Introduction to scRNA-seq integration"
href: articles/integration_introduction.html
- text: "Integrative analysis in Seurat v5"
href: articles/seurat5_integration.html
- text: "Mapping and annotating query datasets"
href: articles/integration_mapping.html
- text: "Multi-assay data"
menu:
- text: "Dictionary Learning for cross-modality integration"
href: articles/seurat5_integration_bridge.html
- text: "Weighted Nearest Neighbor Analysis"
href: articles/weighted_nearest_neighbor_analysis.html
- text: "Integrating scRNA-seq and scATAC-seq data"
href: articles/seurat5_atacseq_integration_vignette.html
- text: "Multimodal reference mapping"
href: articles/multimodal_reference_mapping.html
- text: "Mixscape Vignette"
href: articles/mixscape_vignette.html
- text: "Massively scalable analysis"
menu:
- text: "Sketch-based analysis in Seurat v5"
href: articles/seurat5_sketch_analysis.html
- text: "Sketch integration using a 1 million cell dataset from Parse Biosciences"
href: articles/ParseBio_sketch_integration.html
- text: "Map COVID PBMC datasets to a healthy reference"
href: articles/COVID_SCTMapping.html
- text: "BPCells Interaction"
href: articles/seurat5_bpcells_interaction_vignette.html
- text: "Spatial analysis"
menu:
- text: "Analysis of spatial datasets (Imaging-based)"
href: articles/seurat5_spatial_vignette_2.html
- text: "Analysis of spatial datasets (Sequencing-based)"
href: articles/spatial_vignette.html
- text: "Other"
menu:
- text: "Cell-cycle scoring and regression"
href: articles/cell_cycle_vignette.html
- text: "Differential expression testing"
href: articles/de_vignette.html
- text: "Demultiplexing with hashtag oligos (HTOs)"
href: articles/hashing_vignette.html
- text: Extensions
href: articles/extensions.html
- text: FAQ
Expand Down