result_local_spatial_coords_df

A dataset containing spatial coordinates for local analysis, typically used in spatial transcriptomics.

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_spatial_coords_df function

A data frame with X rows and 3 columns:<dl>
 <dt>imagecol</dt>
<dd>The x-coordinate of the spot in the image.</dd> <dt>imagerow</dt>
<dd>The y-coordinate of the spot in the image.</dd> <dt>Spot_ID</dt>
<dd>The unique identifier for each spatial spot.</dd>
</dl>

Format

Local Spatial Coordinates Data Frame — result_local_spatial_coords_df

A data frame with X rows and 3 columns:<dl>
 <dt>imagecol</dt>
<dd>The x-coordinate of the spot in the image.</dd>

 <dt>imagerow</dt>
<dd>The y-coordinate of the spot in the image.</dd>

 <dt>Spot_ID</dt>
<dd>The unique identifier for each spatial spot.</dd>


</dl>

result_local_spatial_coords_df: Local Spatial Coordinates Data Frame

Description

Usage

Arguments

Format

Examples