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Introduction

Select genes that have biological significance is useful for downstream analysis.Here we bring up a feature selection method called HighlyRegionalGeneswhich identify genes with regional patterns.The method mainly contains three steps:

  • construct SNN
  • calculate score and rank genes
  • select the regional distributed genes

We use iteration to make the SNN more precise.Below is the workflow.

workflow.png

System Requirements

  • R version: >= 3.6.1
  • Seurat version: >= 3.1.4

If you would like to run the codes that compare HRG with other feature selection methods, M3drop and parallel packages need to be installed. It is necessary to notify you that those codes will cost much time.

Installation

the package can be installed directly from the github.

install.packages("devtools")
library(devtools)
install_github("JulieBaker1/HighlyRegionalGenes")

Usage

The vignette of HighlyRegionalGenes can be found in the project wiki.

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