test_data

This dataset includes:<ul>
<li>gene_spt_df: A data frame of spot-level gene expression.</li>
<li>cell_prop_df: A data frame with cell type proportions.</li>
<li>spatial_coords_df: A data frame of spatial coordinates.</li>
</ul>

datasets

Provides tools for analyzing spatial cell-cell interactions based on ligand-receptor pairs, including functions for local, regional, and global analysis using spatial transcriptomics data. Integrates with databases like 'CellChat' <http://www.cellchat.org/>, 'CellPhoneDB' <https://www.cellphonedb.org/>, 'Cellinker' <https://www.rna-society.org/cellinker/index.html>, 'ICELLNET' <https://github.com/soumelis-lab/ICELLNET>, and 'ConnectomeDB' <https://humanconnectome.org/software/connectomedb/> to identify ligand-receptor pairs, visualize interactions through heatmaps, chord diagrams, and infer interactions on different spatial scales.

Li-Ting Ku

SpaCCI

Spatially Aware Cell-Cell Interaction Analysis

test_data function

An object of class <code>list</code> of length 3.

test_data: Test data for SpaCCI

Description

Usage

Arguments

Format

Examples