seuratIntegrationMulti: 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

seuratIntegrationMulti(
  group = c("sudo", "docker"),
  scratch.folder,
  folder,
  separator,
  resName,
  format,
  nFeature = 2000
)

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
folder	a character string indicating the path of the folder containing the counts matrices to be integrated
separator	separator used in count file, e.g. '\t', ','
resName	name for result matrix
format	format for all the matrix that has to be integrated. Format has to be all the same
nFeature	number of features used for the generation of the anchors

Value

file containing the normalized matrix with the anchors

Author(s)

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

Examples

## Not run: 
seuratIntegrationMulti(group=c("sudo"), scratch.folder="/home/user/scratch", folder="/home/user/folderWithFiles",separator=",",resName="test",format="csv")
 #to be added

## End(Not run) 

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