README.md

In liuqivandy/SpaGene: Identify spatially localized genes and colocalized gene pairs

SpaGene

========== Introduction Installation Citation Tutorial

Introduction

SpaGene is a R package to find spatially variable genes and colocalized gene pairs from spatial omics data.

Installation

library(devtools)
install_github("liuqivandy/SpaGene")

Citation

Liu Q, Hsu Chih-Yuan, Shyr Yu. Scalable and model-free detection of spatial patterns and colocalization, Genome Research,2022(doi: 10.1101/gr.276851.122)

Tutorial

• Analyze spatial transcriptomics MOB data
• Analyze MERFISH data
• Analyze Slideseq V2 mouse cerebellum data
• Analyze 10X Visium mouse brain data
• Analyze HDST MOB data
• Analyze spatial transcriptomics Breat Cancer data
• Analyze Slideseq V2 MOB data
• Analyze two 10X Visum mouse brain data: anterior and posterior regions

liuqivandy/SpaGene documentation built on July 1, 2023, 6:44 a.m.