calc_bsc: Calculate Bivariate Spatial Correlation

In soymintc/scBSC: Bivariate Spatial Correlation for Spatial Single Cell RNA-Seq

Description

This function converts input temperatures in Fahrenheit to Celsius.

Usage

calc_bsc(feature1, feature2, sdata, conn_mat, assay = "SCT")

Arguments

feature1	a gene symbol as in Seurat object
feature2	another gene symbol as in Seurat object
sdata	Seurat formatted spatial 10X scRNA expression data
conn_mat	connectivity matrix (conn_mat) from make_conn_mat
assay	default to 'SCT' but can be 'Spatial' (raw) or 'SCT'

Details

Returns a list of bivariate spatial correlation statistics according to Lee S. J Geograph Syst (2001) 3:369-385.

Value

A list containing $r (Pearson's r), $r_sm (spatially smoothened r), $L_XX (clustering factor of feature1), $L_YY (clustering factor of feature2), $L_XY (L_X,Y bivariate spatial correlation from)

Examples

# Refer to https://github.com/soymintc/scBSC

soymintc/scBSC documentation built on Dec. 23, 2021, 4:24 a.m.