result_local

This dataset contains the results of spatial neighborhood analyses.
These objects can be used for testing and running example analyses with the SpaCCI package.

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

result_local function

A list containing:<dl>
 <dt>dataframelist</dt>
<dd>A list of data frames, each containing p-value results for spatial neighborhoods.</dd> <dt>RegionIDs_matrix</dt>
<dd>A list of matrices, each containing the spot IDs for specific neighborhoods.</dd>
</dl>

Format

result_local data and spatial coordinates for SpaCCI
Local Regional Data — result_local

A list containing:<dl>
 <dt>dataframelist</dt>
<dd>A list of data frames, each containing p-value results for spatial neighborhoods.</dd>

 <dt>RegionIDs_matrix</dt>
<dd>A list of matrices, each containing the spot IDs for specific neighborhoods.</dd>


</dl>

result_local: result_local data and spatial coordinates for SpaCCI Local Regional Data

Description

Usage

Arguments

Format

Examples