CoordinationType: Enumeration of Coordination Type values

In vitessce/vitessce-r: Create Interactive Single-cell Visualizations with the 'Vitessce' JavaScript Library

Enumeration of Coordination Type values

Description

The CoordinationType list contains an enumeration of valid string constant values representing coordination types in the coordination space.

• DATASET: The dataset to be used for a view.

• EMBEDDING_TYPE: The type of embedding to be used in the embedding scatterplot view, for example "UMAP" or "t-SNE".

• EMBEDDING_ZOOM: The zoom level of an embedding scatterplot view.

• EMBEDDING_ROTATION: The rotation of an embedding scatterplot view.

• EMBEDDING_TARGET_X: The x-axis center of an embedding scatterplot view.

• EMBEDDING_TARGET_Y: The y-axis center of an embedding scatterplot view.

• EMBEDDING_TARGET_Z: The z-axis center of an embedding scatterplot view.

• SPATIAL_ZOOM: The zoom level of a spatial view.

• SPATIAL_ROTATION: The rotation of a spatial view.

• SPATIAL_TARGET_X: The x-coordinate of the center of a spatial view.

• SPATIAL_TARGET_Y: The y-coordinate of the center of a spatial view.

• SPATIAL_TARGET_Z: The z-coordinate of the center of a spatial view.

• HEATMAP_ZOOM_X: The x-axis zoom level of a heatmap view.

• HEATMAP_ZOOM_Y: The y-axis zoom level of a heatmap view.

• HEATMAP_TARGET_X: The x-coordinate of the center of a heatmap view.

• HEATMAP_TARGET_Y: The y-coordinate of the center of a heatmap view.

• CELL_FILTER: A subset of cells to include after filtering.

• CELL_HIGHLIGHT: A subset of cells to highlight.

• CELL_SET_SELECTION: A subset of cell sets to select.

• CELL_SET_HIGHLIGHT: A subset of cell sets to highlight.

• CELL_SET_COLOR: A mapping from cell sets to colors.

• GENE_FILTER: A subset of genes to include after filtering.

• GENE_HIGHLIGHT: A subset of genes to highlight.

• GENE_SELECTION: A subset of genes to select.

• GENE_EXPRESSION_COLORMAP: The colormap to use for the gene expression scale.

• GENE_EXPRESSION_COLORMAP_RANGE: The range of gene expression values to map.

• CELL_COLOR_ENCODING: The color encoding to use for cell entities.

• SPATIAL_LAYERS: Layer definitions for the spatial view.

• GENOMIC_ZOOM: The zoom level of a higlass view.

• GENOMIC_TARGET_X: The x-coordinate of the center of a higlass view.

• GENOMIC_TARGET_Y: The y-coordinate of the center of a higlass view.

• ADDITIONAL_CELL_SETS: User-defined cell sets.

Usage

CoordinationType

Format

An object of class list of length 35.

Examples

vc <- VitessceConfig$new(schema_version = "1.0.16", name = "My config")
ref_dataset <- vc$add_dataset("Reference")
qry_dataset <- vc$add_dataset("Query")
ref_plot <- vc$add_view(ref_dataset, Component$SCATTERPLOT, mapping = "umap")
qry_plot <- vc$add_view(qry_dataset, Component$SCATTERPLOT, mapping = "proj.umap")
vc$link_views(
  c(ref_plot, qry_plot),
  c(CoordinationType$EMBEDDING_TARGET_X, CoordinationType$EMBEDDING_TARGET_Y),
  c_values = c(0, 0)
)

vitessce/vitessce-r documentation built on Oct. 12, 2024, 11:47 p.m.