seurat_ccycle: Seurat cell cycle

In kendomaniac/rCASC: rCASC reproducible Classification Analysis of Single Cell Sequencing Data

Seurat cell cycle

Description

This function executes a ubuntu docker that performs seurat cell cycle

Usage

seurat_ccycle(
  group = c("sudo", "docker"),
  scratch.folder,
  file,
  separator,
  seed
)

Arguments

group	a character string. Two options: sudo or docker, depending to which group the user belongs
scratch.folder	a character string indicating the path of the scratch folder
file	a character string indicating the path of the first matrix
separator	separator used in count file, e.g. '\t', ','
seed	integer file necessary for reproducibility

Value

file containing the cluster association in the datasets merged by seurat

Author(s)

Luca Alessandri, alessandri [dot] luca1991 [at] gmail [dot] com, University of Torino

Examples

## Not run: 
library(rCASC)
source("seurat_cCycle.R")
path=getwd()
scratch=paste(path,"/scratch",sep="")
dir.create(scratch)
file1=paste(path,"/setA.csv",sep="")
seurat_ccycle(group="docker", scratch.folder=scratch, file= file1, separator=",",seed=1111)

## End(Not run)

kendomaniac/rCASC documentation built on July 3, 2024, 6:05 a.m.