posi

Merged spatial location and metadata information.

datasets

Analysis of spatial relationships between cell types in spatial transcriptomics data. Spatial proximity is a critical factor in cell-cell communication. The package calculates nearest neighbor distances between specified cell types and provides visualization tools to explore spatial patterns. Applications include studying cell-cell interactions, immune microenvironment characterization, and spatial organization of tissues.

Zixiang Wang

STDistance

Spatial Transcriptomics Distance Calculation and Visualization

Lei Yang

Zhaojian Liu

posi function

A data frame with 293 observations on the following 18 variables.<dl>
 <dt><code>Newbarcode</code></dt>
<dd>a character vector</dd> <dt><code>barcode</code></dt>
<dd>a character vector</dd> <dt><code>in_tissue</code></dt>
<dd>a numeric vector</dd> <dt><code>array_row</code></dt>
<dd>a numeric vector</dd> <dt><code>array_col</code></dt>
<dd>a numeric vector</dd> <dt><code>pxl_row_in_fullres</code></dt>
<dd>a numeric vector</dd> <dt><code>pxl_col_in_fullres</code></dt>
<dd>a numeric vector</dd> <dt><code>Sample</code></dt>
<dd>a character vector</dd> <dt><code>Sampleid</code></dt>
<dd>a numeric vector</dd> <dt><code>orig.ident</code></dt>
<dd>a character vector</dd> <dt><code>nCount_Spatial</code></dt>
<dd>a numeric vector</dd> <dt><code>nFeature_Spatial</code></dt>
<dd>a numeric vector</dd> <dt><code>nCount_SCT</code></dt>
<dd>a numeric vector</dd> <dt><code>nFeature_SCT</code></dt>
<dd>a numeric vector</dd> <dt><code>integrated_snn_res.0.8</code></dt>
<dd>a numeric vector</dd> <dt><code>seurat_clusters</code></dt>
<dd>a numeric vector</dd> <dt><code>celltype_ABCDepi</code></dt>
<dd>a character vector</dd> <dt><code>gen2_SPLIz_numeric</code></dt>
<dd>a numeric vector</dd> 
</dl>

Format

posi — posi

A data frame with 293 observations on the following 18 variables.<dl>
 <dt><code>Newbarcode</code></dt>
<dd>a character vector</dd>

 <dt><code>barcode</code></dt>
<dd>a character vector</dd>

 <dt><code>in_tissue</code></dt>
<dd>a numeric vector</dd>

 <dt><code>array_row</code></dt>
<dd>a numeric vector</dd>

 <dt><code>array_col</code></dt>
<dd>a numeric vector</dd>

 <dt><code>pxl_row_in_fullres</code></dt>
<dd>a numeric vector</dd>

 <dt><code>pxl_col_in_fullres</code></dt>
<dd>a numeric vector</dd>

 <dt><code>Sample</code></dt>
<dd>a character vector</dd>

 <dt><code>Sampleid</code></dt>
<dd>a numeric vector</dd>

 <dt><code>orig.ident</code></dt>
<dd>a character vector</dd>

 <dt><code>nCount_Spatial</code></dt>
<dd>a numeric vector</dd>

 <dt><code>nFeature_Spatial</code></dt>
<dd>a numeric vector</dd>

 <dt><code>nCount_SCT</code></dt>
<dd>a numeric vector</dd>

 <dt><code>nFeature_SCT</code></dt>
<dd>a numeric vector</dd>

 <dt><code>integrated_snn_res.0.8</code></dt>
<dd>a numeric vector</dd>

 <dt><code>seurat_clusters</code></dt>
<dd>a numeric vector</dd>

 <dt><code>celltype_ABCDepi</code></dt>
<dd>a character vector</dd>

 <dt><code>gen2_SPLIz_numeric</code></dt>
<dd>a numeric vector</dd>

 
</dl>

posi: posi

Description

Usage

Arguments

Format

Details

References

Examples