seuratIntegration: Seurat Integration

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

Seurat Integration

Description

This function executes a ubuntu docker that performs seurat integration

Usage

seuratIntegration(
  group = c("sudo", "docker"),
  scratch.folder,
  file1,
  file2,
  separator1,
  separator2,
  seed,
  k = 0.5
)

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
file1	a character string indicating the path of the first matrix
file2	a character string indicating the path of the second matrix
separator1	separator used in count file, e.g. '\t', ','
separator2	separator used in count file, e.g. '\t', ','
seed	integer file necessary for reproducibility
k	resolution for Seurat Analysis

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: 
seuratIntegration(group="docker", scratch.folder="/home/user/scratch", file1="/home/user/dockerFile/Seurat_join_DAPUSHARE/function/example/set1.csv",file2="/home/user/dockerFile/Seurat_join_DAPUSHARE/function/example/setA.csv", separator1=",",separator2=",",seed=1111) 

## End(Not run)

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