Get_GK1: Batch/Specify cell population for GO and KEGG analyse

In Lian-Lab/LIANLAB: To integrate analysis methods and simplify analysis process

Description

Batch/Specify cell population for GO and KEGG analyse

Usage

Get_GK1(
  marker,
  spe_cluster = NULL,
  species = c("m", "h"),
  logfc.cutoff = 0.1,
  p.cutoff = 0.01
)

Arguments

marker	result of FindAllMarkers(), including cols named avg_log2FC, p_val_adj, gene
spe_cluster	the clusters you interested
species	m/h
logfc.cutoff	cut off the logFC
p.cutoff	cut off the p value

Examples

## Not run: 
input.file <- system.file('extdata','DEG.csv',package = 'LIANLABDATA')
markers <- read.csv(input.file,header = T, row.names = 1)
Get_GK1( markers_top,species = 'm')
Get_GK1( markers_top,spe_cluster = 'Naive CD4 T',species = 'm')

## End(Not run)

Lian-Lab/LIANLAB documentation built on June 23, 2021, 5:37 a.m.